============================================================================= Reading config file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/configfile.txt ============================================================================= ----------------------------------------------------------------------------- Warning: Non-parallel version of QRNA cannot spawn threads. Warning: More threads than cores available. Parameters to be used: Number of minimization steps (NSTEPS): 5000 Golden section step sizes: maximal (MAXSTEP): 0.0001 minimal (MINSTEP): 1e-08 Verbosity (VERBOSE): 1 Write output every: 100 steps (WRITEFREQ) Record trajectory (TRAJECTORY): disabled Pedantic treatment of molecules (PEDANTICMOL): disabled Van der Waals cutoff radius (CUTOFF): 12 Born generalized solvent (USEBORN): disabled Constraints on secondary struct. (SSCONSTR): enabled Auto-detection of secondary struct. (SSDETECT): enabled Secondary structure (SECSTRUCT): none specified Hydrogen bonds (HBONDS): enabled Electrostatics (ELECTR): enabled van der Waals interactions (VANDERWAALS): enabled Anti-blow-up protection (BLOWGUARD): enabled Occupancy as positional restraint (POSRESTRAINTS): disabled Restraints description (RESTRFILE): none Number of parallel threads: 1 ----------------------------------------------------------------------------- Internal Warning: unknown atom type(s) in bond: C2 H5 Internal Warning: unknown atom type(s) in bond: C2 N* Internal Warning: unknown atom type(s) in bond: C2 NB Internal Warning: unknown atom type(s) in bond: C C1 Internal Warning: unknown atom type(s) in bond: CA C1 Internal Warning: unknown atom type(s) in bond: C1 C1 Internal Warning: unknown atom type(s) in bond: C1 CT Internal Warning: unknown atom type(s) in bond: C1 HA Internal Warning: unknown atom type(s) in bond: C1 H4 Internal Warning: unknown atom type(s) in bond: C1 N* Internal Warning: unknown atoms in angle: H5 C2 N* Internal Warning: unknown atoms in angle: H5 C2 NB Internal Warning: unknown atoms in angle: N* C2 NB Internal Warning: unknown atoms in angle: CB N* C2 Internal Warning: unknown atoms in angle: C2 N* CT Internal Warning: unknown atoms in angle: CB NB C2 Internal Warning: unknown atoms in angle: C1 C NA Internal Warning: unknown atoms in angle: C1 C O Internal Warning: unknown atoms in angle: C1 CA N2 Internal Warning: unknown atoms in angle: C1 CA NC Internal Warning: unknown atoms in angle: C C1 C1 Internal Warning: unknown atoms in angle: C C1 CT Internal Warning: unknown atoms in angle: C C1 HA Internal Warning: unknown atoms in angle: C C1 H4 Internal Warning: unknown atoms in angle: CA C1 C1 Internal Warning: unknown atoms in angle: CA C1 HA Internal Warning: unknown atoms in angle: CA C1 H4 Internal Warning: unknown atoms in angle: C1 C1 CT Internal Warning: unknown atoms in angle: C1 C1 HA Internal Warning: unknown atoms in angle: C1 C1 H4 Internal Warning: unknown atoms in angle: C1 C1 N* Internal Warning: unknown atoms in angle: H4 C1 N* Internal Warning: unknown atoms in angle: H1 CT C1 Internal Warning: unknown atoms in angle: HC CT C1 Internal Warning: unknown atoms in angle: C N* C1 Internal Warning: unknown atoms in angle: C1 N* CT Internal Warning: unknown atom(s) in dihedral: X C2 N* X Internal Warning: unknown atom(s) in dihedral: X C2 NB X Internal Warning: unknown atom(s) in dihedral: X C C1 X Internal Warning: unknown atom(s) in dihedral: X CA C1 X Internal Warning: unknown atom(s) in dihedral: X C1 C1 X Internal Warning: unknown atom(s) in dihedral: X C1 CT X Internal Warning: unknown atom(s) in dihedral: X C1 N* X Internal Warning: unknown atom(s) in dihedral: HC CT C1 C1 Internal Warning: unknown atom(s) in dihedral: HC CT C1 C1 Internal Warning: unknown atom(s) in dihedral: C1 C1 C O Internal Warning: unknown atom(s) in dihedral: C1 C1 C O Internal Warning: unknown atom(s) in dihedral: OS CT N* C2 Internal Warning: unknown atom(s) in dihedral: OS CT N* C2 Internal Warning: unknown atom(s) in dihedral: OS CT N* C2 Internal Warning: unknown atom(s) in dihedral: OS CT N* C1 Internal Warning: unknown atom(s) in dihedral: OS CT N* C1 Internal Warning: unknown atom(s) in dihedral: OS CT N* C1 Internal Warning: unknown atom(s) in dihedral: OS CT N* C1 Internal Warning: unknown atom(s) in improper: C C1 N* CT Internal Warning: unknown atom(s) in improper: C C1 C1 CT Internal Warning: unknown atom(s) in improper: C1 N2 CA NC Initializing... Generic atom descriptions read: 47 Generic bond descriptions read: 199 Generic angle descriptions read: 567 Generic dihedral descriptions read: 812 Generic improper descriptions read: 116 Generic vdW descriptions read: 47 ----------------------------------------------------------------------------- ============================================================================= Reading PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment.pdb ============================================================================= Atom's 522 N9 residue renamed to RA3 Atom's 521 C8 residue renamed to RA3 Atom's 520 N7 residue renamed to RA3 Atom's 519 H62 residue renamed to RA3 Atom's 518 H61 residue renamed to RA3 Atom's 517 N6 residue renamed to RA3 Atom's 516 C6 residue renamed to RA3 Atom's 515 C5 residue renamed to RA3 Atom's 514 C4 residue renamed to RA3 Atom's 513 N3 residue renamed to RA3 Atom's 512 C2 residue renamed to RA3 Atom's 511 N1 residue renamed to RA3 Atom's 510 O5' residue renamed to RA3 Atom's 509 C5' residue renamed to RA3 Atom's 508 O4' residue renamed to RA3 Atom's 507 C4' residue renamed to RA3 Atom's 506 O3' residue renamed to RA3 Atom's 505 C3' residue renamed to RA3 Atom's 504 H2' residue renamed to RA3 Atom's 503 O2' residue renamed to RA3 Atom's 502 C2' residue renamed to RA3 Atom's 501 C1' residue renamed to RA3 Atom's 500 OP2 residue renamed to RA3 Atom's 499 OP1 residue renamed to RA3 Atom's 498 P residue renamed to RA3 Missing atom added: ATOM 23 H5'1 A A 1 260.976 243.510 212.119 1.00 0.00 H Missing atom added: ATOM 24 H5'2 A A 1 261.693 242.851 213.695 1.00 0.00 H Missing atom added: ATOM 25 H4' A A 1 260.987 244.872 214.146 1.00 0.00 H Missing atom added: ATOM 26 H3' A A 1 259.486 242.496 215.431 1.00 0.00 H Missing atom added: ATOM 29 H1' A A 1 257.699 245.715 214.793 1.00 0.00 H Missing atom added: ATOM 28 HO'2 A A 1 260.455 245.677 216.195 1.00 0.00 H Missing atom added: ATOM 30 H8 A A 1 257.889 242.292 213.228 1.00 0.00 H Missing atom added: ATOM 33 H2 A A 1 253.483 245.468 217.306 1.00 0.00 H Missing atom added: ATOM 23 H5'1 A A 2 265.939 244.975 216.473 1.00 0.00 H Missing atom added: ATOM 24 H5'2 A A 2 265.297 243.312 216.983 1.00 0.00 H Missing atom added: ATOM 25 H4' A A 2 265.970 244.295 218.819 1.00 0.00 H Missing atom added: ATOM 26 H3' A A 2 262.936 243.838 218.452 1.00 0.00 H Missing atom added: ATOM 29 H1' A A 2 264.162 246.667 220.563 1.00 0.00 H Missing atom added: ATOM 28 HO'2 A A 2 265.289 243.811 220.924 1.00 0.00 H Missing atom added: ATOM 30 H8 A A 2 262.728 246.207 217.110 1.00 0.00 H Missing atom added: ATOM 33 H2 A A 2 260.273 248.284 223.092 1.00 0.00 H Missing atom added: ATOM 23 H5'1 A A 3 262.771 242.763 221.673 1.00 0.00 H Missing atom added: ATOM 24 H5'2 A A 3 261.900 241.190 222.122 1.00 0.00 H Missing atom added: ATOM 25 H4' A A 3 261.162 242.713 223.508 1.00 0.00 H Missing atom added: ATOM 26 H3' A A 3 259.195 241.601 221.400 1.00 0.00 H Missing atom added: ATOM 29 H1' A A 3 258.730 245.051 222.757 1.00 0.00 H Missing atom added: ATOM 28 HO'2 A A 3 259.205 242.651 224.647 1.00 0.00 H Missing atom added: ATOM 30 H8 A A 3 260.044 243.470 219.600 1.00 0.00 H Missing atom added: ATOM 33 H2 A A 3 254.222 246.465 221.409 1.00 0.00 H Missing atom added: ATOM 24 H5'1 G A 4 258.584 242.210 225.078 1.00 0.00 H Missing atom added: ATOM 25 H5'2 G A 4 258.078 241.075 226.452 1.00 0.00 H Missing atom added: ATOM 26 H4' G A 4 257.456 243.393 226.607 1.00 0.00 H Missing atom added: ATOM 27 H3' G A 4 255.133 241.620 226.250 1.00 0.00 H Missing atom added: ATOM 30 H1' G A 4 255.167 245.058 224.563 1.00 0.00 H Missing atom added: ATOM 29 HO'2 G A 4 255.852 244.616 227.674 1.00 0.00 H Missing atom added: ATOM 31 H8 G A 4 255.483 241.825 223.041 1.00 0.00 H Missing atom added: ATOM 21 H5'1 C A 5 255.400 243.624 229.855 1.00 0.00 H Missing atom added: ATOM 22 H5'2 C A 5 253.892 242.703 230.415 1.00 0.00 H Missing atom added: ATOM 23 H4' C A 5 252.906 243.905 230.650 1.00 0.00 H Missing atom added: ATOM 24 H3' C A 5 252.758 240.927 229.939 1.00 0.00 H Missing atom added: ATOM 27 H1' C A 5 250.192 243.462 228.656 1.00 0.00 H Missing atom added: ATOM 26 HO'2 C A 5 250.933 243.094 231.785 1.00 0.00 H Missing atom added: ATOM 30 H6 C A 5 252.898 241.513 227.538 1.00 0.00 H Missing atom added: ATOM 31 H5 C A 5 253.088 239.695 225.541 1.00 0.00 H Missing atom added: ATOM 21 H5'1 C A 6 251.769 243.210 233.377 1.00 0.00 H Missing atom added: ATOM 22 H5'2 C A 6 250.036 242.925 233.972 1.00 0.00 H Missing atom added: ATOM 23 H4' C A 6 249.516 244.409 234.022 1.00 0.00 H Missing atom added: ATOM 24 H3' C A 6 248.370 241.589 233.656 1.00 0.00 H Missing atom added: ATOM 27 H1' C A 6 246.815 244.657 231.974 1.00 0.00 H Missing atom added: ATOM 26 HO'2 C A 6 247.381 244.455 235.154 1.00 0.00 H Missing atom added: ATOM 30 H6 C A 6 248.705 241.790 231.211 1.00 0.00 H Missing atom added: ATOM 31 H5 C A 6 248.275 239.780 229.449 1.00 0.00 H Missing atom added: ATOM 21 H5'1 C A 7 248.992 242.266 236.669 1.00 0.00 H Missing atom added: ATOM 22 H5'2 C A 7 248.798 243.534 238.007 1.00 0.00 H Missing atom added: ATOM 23 H4' C A 7 250.292 243.994 238.171 1.00 0.00 H Missing atom added: ATOM 24 H3' C A 7 247.482 245.147 238.589 1.00 0.00 H Missing atom added: ATOM 27 H1' C A 7 250.452 247.332 237.559 1.00 0.00 H Missing atom added: ATOM 26 HO'2 C A 7 250.477 245.381 240.142 1.00 0.00 H Missing atom added: ATOM 30 H6 C A 7 247.491 245.961 236.252 1.00 0.00 H Missing atom added: ATOM 31 H5 C A 7 245.363 247.123 235.043 1.00 0.00 H Missing atom added: ATOM 24 H5'1 G A 8 250.085 246.456 242.717 1.00 0.00 H Missing atom added: ATOM 25 H5'2 G A 8 248.790 246.389 244.040 1.00 0.00 H Missing atom added: ATOM 26 H4' G A 8 249.988 248.451 243.726 1.00 0.00 H Missing atom added: ATOM 27 H3' G A 8 247.146 248.672 242.990 1.00 0.00 H Missing atom added: ATOM 30 H1' G A 8 249.781 250.559 240.950 1.00 0.00 H Missing atom added: ATOM 29 HO'2 G A 8 249.634 250.661 244.162 1.00 0.00 H Missing atom added: ATOM 31 H8 G A 8 247.858 247.688 239.992 1.00 0.00 H Missing atom added: ATOM 24 H5'1 G A 9 246.693 251.014 243.979 1.00 0.00 H Missing atom added: ATOM 25 H5'2 G A 9 246.980 251.811 245.626 1.00 0.00 H Missing atom added: ATOM 26 H4' G A 9 245.455 252.874 244.101 1.00 0.00 H Missing atom added: ATOM 27 H3' G A 9 244.104 251.803 246.488 1.00 0.00 H Missing atom added: ATOM 30 H1' G A 9 242.349 251.640 243.090 1.00 0.00 H Missing atom added: ATOM 29 HO'2 G A 9 243.696 254.321 244.249 1.00 0.00 H Missing atom added: ATOM 31 H8 G A 9 243.758 248.952 245.001 1.00 0.00 H Missing atom added: ATOM 24 H5'1 G A 10 241.483 255.332 247.869 1.00 0.00 H Missing atom added: ATOM 25 H5'2 G A 10 242.369 256.149 249.275 1.00 0.00 H Missing atom added: ATOM 26 H4' G A 10 240.446 254.797 249.778 1.00 0.00 H Missing atom added: ATOM 27 H3' G A 10 242.948 253.625 250.797 1.00 0.00 H Missing atom added: ATOM 30 H1' G A 10 240.205 251.331 249.424 1.00 0.00 H Missing atom added: ATOM 29 HO'2 G A 10 239.645 253.651 251.580 1.00 0.00 H Missing atom added: ATOM 31 H8 G A 10 243.385 252.125 247.964 1.00 0.00 H Missing atom added: ATOM 23 H5'1 A A 11 240.804 253.384 253.147 1.00 0.00 H Missing atom added: ATOM 24 H5'2 A A 11 240.815 254.154 254.833 1.00 0.00 H Missing atom added: ATOM 25 H4' A A 11 240.311 252.046 255.129 1.00 0.00 H Missing atom added: ATOM 26 H3' A A 11 243.054 253.034 256.153 1.00 0.00 H Missing atom added: ATOM 29 H1' A A 11 242.598 249.457 255.173 1.00 0.00 H Missing atom added: ATOM 28 HO'2 A A 11 240.577 250.863 257.044 1.00 0.00 H Missing atom added: ATOM 30 H8 A A 11 244.156 252.556 253.703 1.00 0.00 H Missing atom added: ATOM 33 H2 A A 11 246.516 247.049 256.900 1.00 0.00 H Missing atom added: ATOM 21 H5'1 C A 12 242.082 251.613 257.520 1.00 0.00 H Missing atom added: ATOM 22 H5'2 C A 12 242.247 251.223 259.324 1.00 0.00 H Missing atom added: ATOM 23 H4' C A 12 242.761 249.740 259.239 1.00 0.00 H Missing atom added: ATOM 24 H3' C A 12 242.945 252.120 261.162 1.00 0.00 H Missing atom added: ATOM 27 H1' C A 12 245.773 249.565 260.803 1.00 0.00 H Missing atom added: ATOM 26 HO'2 C A 12 242.705 248.759 261.450 1.00 0.00 H Missing atom added: ATOM 30 H6 C A 12 244.980 252.891 259.982 1.00 0.00 H Missing atom added: ATOM 31 H5 C A 12 246.255 255.218 260.517 1.00 0.00 H Missing atom added: ATOM 21 H5'1 C A 13 241.563 248.636 263.107 1.00 0.00 H Missing atom added: ATOM 22 H5'2 C A 13 241.809 249.108 264.883 1.00 0.00 H Missing atom added: ATOM 23 H4' C A 13 242.610 247.854 265.392 1.00 0.00 H Missing atom added: ATOM 24 H3' C A 13 242.320 250.826 266.090 1.00 0.00 H Missing atom added: ATOM 27 H1' C A 13 245.600 248.918 266.600 1.00 0.00 H Missing atom added: ATOM 26 HO'2 C A 13 242.758 247.943 267.804 1.00 0.00 H Missing atom added: ATOM 30 H6 C A 13 244.155 251.355 264.515 1.00 0.00 H Missing atom added: ATOM 31 H5 C A 13 244.941 253.868 263.890 1.00 0.00 H Missing atom added: ATOM 21 H5'1 C A 14 240.338 250.070 271.509 1.00 0.00 H Missing atom added: ATOM 22 H5'2 C A 14 241.150 251.675 271.060 1.00 0.00 H Missing atom added: ATOM 23 H4' C A 14 241.431 252.251 272.496 1.00 0.00 H Missing atom added: ATOM 24 H3' C A 14 242.597 252.472 269.669 1.00 0.00 H Missing atom added: ATOM 27 H1' C A 14 244.778 252.754 272.804 1.00 0.00 H Missing atom added: ATOM 26 HO'2 C A 14 242.135 254.555 272.294 1.00 0.00 H Missing atom added: ATOM 30 H6 C A 14 244.081 250.553 270.152 1.00 0.00 H Missing atom added: ATOM 31 H5 C A 14 245.701 249.390 268.321 1.00 0.00 H Missing atom added: ATOM 23 H5'1 A A 15 241.170 256.813 271.209 1.00 0.00 H Missing atom added: ATOM 24 H5'2 A A 15 241.629 258.050 269.907 1.00 0.00 H Missing atom added: ATOM 25 H4' A A 15 242.182 258.948 271.824 1.00 0.00 H Missing atom added: ATOM 26 H3' A A 15 244.458 258.119 269.904 1.00 0.00 H Missing atom added: ATOM 29 H1' A A 15 245.059 258.211 273.591 1.00 0.00 H Missing atom added: ATOM 28 HO'2 A A 15 243.714 260.588 272.140 1.00 0.00 H Missing atom added: ATOM 30 H8 A A 15 244.440 255.599 270.948 1.00 0.00 H Missing atom added: ATOM 33 H2 A A 15 249.926 257.937 274.199 1.00 0.00 H Missing atom added: ATOM 21 H5'1 C A 16 245.395 261.138 271.265 1.00 0.00 H Missing atom added: ATOM 22 H5'2 C A 16 246.846 261.685 270.250 1.00 0.00 H Missing atom added: ATOM 23 H4' C A 16 247.975 261.653 271.344 1.00 0.00 H Missing atom added: ATOM 24 H3' C A 16 247.726 261.367 268.302 1.00 0.00 H Missing atom added: ATOM 27 H1' C A 16 250.397 259.503 270.315 1.00 0.00 H Missing atom added: ATOM 26 HO'2 C A 16 249.962 262.707 270.458 1.00 0.00 H Missing atom added: ATOM 30 H6 C A 16 247.394 258.930 268.578 1.00 0.00 H Missing atom added: ATOM 31 H5 C A 16 246.795 257.240 266.550 1.00 0.00 H Missing atom added: ATOM 21 H5'1 U A 17 252.913 264.974 268.519 1.00 0.00 H Missing atom added: ATOM 22 H5'2 U A 17 253.117 263.554 267.347 1.00 0.00 H Missing atom added: ATOM 23 H4' U A 17 254.814 263.830 268.986 1.00 0.00 H Missing atom added: ATOM 24 H3' U A 17 253.157 261.389 269.339 1.00 0.00 H Missing atom added: ATOM 27 H1' U A 17 254.521 263.297 272.398 1.00 0.00 H Missing atom added: ATOM 26 HO'2 U A 17 256.291 262.504 269.810 1.00 0.00 H Missing atom added: ATOM 29 H6 U A 17 251.351 263.120 271.185 1.00 0.00 H Missing atom added: ATOM 28 H5 U A 17 249.450 262.067 272.422 1.00 0.00 H Missing atom added: ATOM 24 H5'1 G A 18 255.798 260.161 269.681 1.00 0.00 H Missing atom added: ATOM 25 H5'2 G A 18 256.784 259.111 268.516 1.00 0.00 H Missing atom added: ATOM 26 H4' G A 18 256.682 258.455 270.828 1.00 0.00 H Missing atom added: ATOM 27 H3' G A 18 255.297 256.558 269.052 1.00 0.00 H Missing atom added: ATOM 30 H1' G A 18 253.859 257.296 272.524 1.00 0.00 H Missing atom added: ATOM 29 HO'2 G A 18 256.942 256.527 272.021 1.00 0.00 H Missing atom added: ATOM 31 H8 G A 18 252.585 258.301 269.324 1.00 0.00 H Missing atom added: ATOM 24 H5'1 G A 19 258.000 254.038 270.145 1.00 0.00 H Missing atom added: ATOM 25 H5'2 G A 19 258.749 253.277 268.631 1.00 0.00 H Missing atom added: ATOM 26 H4' G A 19 257.465 251.866 270.094 1.00 0.00 H Missing atom added: ATOM 27 H3' G A 19 256.175 252.256 267.477 1.00 0.00 H Missing atom added: ATOM 30 H1' G A 19 254.021 252.043 270.636 1.00 0.00 H Missing atom added: ATOM 29 HO'2 G A 19 256.313 249.905 269.920 1.00 0.00 H Missing atom added: ATOM 31 H8 G A 19 254.719 254.915 268.603 1.00 0.00 H Missing atom added: ATOM 24 H5'1 G A 20 257.235 248.236 268.119 1.00 0.00 H Missing atom added: ATOM 25 H5'2 G A 20 257.802 247.499 266.517 1.00 0.00 H Missing atom added: ATOM 26 H4' G A 20 255.955 246.461 267.653 1.00 0.00 H Missing atom added: ATOM 27 H3' G A 20 255.160 247.716 265.112 1.00 0.00 H Missing atom added: ATOM 30 H1' G A 20 252.776 247.832 268.106 1.00 0.00 H Missing atom added: ATOM 29 HO'2 G A 20 254.191 245.130 267.085 1.00 0.00 H Missing atom added: ATOM 31 H8 G A 20 254.668 250.515 266.657 1.00 0.00 H Missing atom added: ATOM 23 H5'1 RA3 A 21 253.360 245.200 265.475 1.00 0.00 H Missing atom added: ATOM 24 H5'2 RA3 A 21 253.127 243.634 264.512 1.00 0.00 H Missing atom added: ATOM 25 H4' RA3 A 21 251.147 244.188 265.260 1.00 0.00 H Missing atom added: ATOM 26 H3' RA3 A 21 251.649 244.377 262.217 1.00 0.00 H Missing atom added: ATOM 29 H1' RA3 A 21 249.097 246.577 263.833 1.00 0.00 H Missing atom added: ATOM 28 HO'2 RA3 A 21 249.158 243.536 264.392 1.00 0.00 H Missing atom added: ATOM 30 H8 RA3 A 21 252.611 246.913 262.517 1.00 0.00 H Missing atom added: ATOM 33 H2 RA3 A 21 246.436 248.511 260.184 1.00 0.00 H Missing atom added: ATOM 34 H3T RA3 A 21 250.302 242.565 263.886 1.00 0.00 H Missing atom added: ATOM 3 OP3 A A 1 260.308 240.860 210.808 1.00 0.00 O Number of atoms: 685 Number of residues: 21 Building intraresidual bonds... Building intraresidual angles... Building intraresidual dihedrals... Building intraresidual impropers... Building interresidual bonds... Building interresidual angles... Internal Warning: unknown atoms in angle: H5 C2 N* Internal Warning: unknown atoms in angle: H5 C2 NB Internal Warning: unknown atoms in angle: N* C2 NB Internal Warning: unknown atoms in angle: CB N* C2 Internal Warning: unknown atoms in angle: C2 N* CT Internal Warning: unknown atoms in angle: CB NB C2 Internal Warning: unknown atoms in angle: C1 C NA Internal Warning: unknown atoms in angle: C1 C O Internal Warning: unknown atoms in angle: C1 CA N2 Internal Warning: unknown atoms in angle: C1 CA NC Internal Warning: unknown atoms in angle: C C1 C1 Internal Warning: unknown atoms in angle: C C1 CT Internal Warning: unknown atoms in angle: C C1 HA Internal Warning: unknown atoms in angle: C C1 H4 Internal Warning: unknown atoms in angle: CA C1 C1 Internal Warning: unknown atoms in angle: CA C1 HA Internal Warning: unknown atoms in angle: CA C1 H4 Internal Warning: unknown atoms in angle: C1 C1 CT Internal Warning: unknown atoms in angle: C1 C1 HA Internal Warning: unknown atoms in angle: C1 C1 H4 Internal Warning: unknown atoms in angle: C1 C1 N* Internal Warning: unknown atoms in angle: H4 C1 N* Internal Warning: unknown atoms in angle: H1 CT C1 Internal Warning: unknown atoms in angle: HC CT C1 Internal Warning: unknown atoms in angle: C N* C1 Internal Warning: unknown atoms in angle: C1 N* CT Building interresidual dihedrals... Internal Warning: unknown atom(s) in dihedral: X C2 N* X Internal Warning: unknown atom(s) in dihedral: X C2 NB X Internal Warning: unknown atom(s) in dihedral: X C C1 X Internal Warning: unknown atom(s) in dihedral: X CA C1 X Internal Warning: unknown atom(s) in dihedral: X C1 C1 X Internal Warning: unknown atom(s) in dihedral: X C1 CT X Internal Warning: unknown atom(s) in dihedral: X C1 N* X Internal Warning: unknown atom(s) in dihedral: HC CT C1 C1 Internal Warning: unknown atom(s) in dihedral: HC CT C1 C1 Internal Warning: unknown atom(s) in dihedral: C1 C1 C O Internal Warning: unknown atom(s) in dihedral: C1 C1 C O Internal Warning: unknown atom(s) in dihedral: OS CT N* C2 Internal Warning: unknown atom(s) in dihedral: OS CT N* C2 Internal Warning: unknown atom(s) in dihedral: OS CT N* C2 Internal Warning: unknown atom(s) in dihedral: OS CT N* C1 Internal Warning: unknown atom(s) in dihedral: OS CT N* C1 Internal Warning: unknown atom(s) in dihedral: OS CT N* C1 Internal Warning: unknown atom(s) in dihedral: OS CT N* C1 Number of bonds built: 739 Number of angles built: 1317 Number of dihedrals built: 1998 Number of impropers built: 146 ----------------------------------------------------------------------------- End of molecule (chain) ----------------------------------------------------------------------------- ----------------------------------------------------------------------------- Building interresidual nonbonded pairs & H-bonds (it may take a while)... Number of electrostatic pairs: 232214 Number of van der Waals pairs: 58538 Number of H-bonds built: 6 Number of spring restraints: 0 Number of positional restraints: 0 Number of base pairs built: 1 Number of molecules (chains) read: 1 ----------------------------------------------------------------------------- Performing minimization step: 1. Total energy = 429996475.0531 kcal/mol (423879737.3948 without restraints) Performing minimization step: 2. Total energy = 381456950.8021 kcal/mol (376098072.4684 without restraints) Performing minimization step: 3. Total energy = 338903522.1522 kcal/mol (334202304.9089 without restraints) Performing minimization step: 4. Total energy = 301548344.4575 kcal/mol (297418645.1535 without restraints) Performing minimization step: 5. Total energy = 268713585.5959 kcal/mol (265081232.3204 without restraints) Performing minimization step: 6. Total energy = 239815187.7772 kcal/mol (236616221.1968 without restraints) Performing minimization step: 7. Total energy = 214349152.1043 kcal/mol (211528338.7401 without restraints) Performing minimization step: 8. Total energy = 191879934.6735 kcal/mol (189389508.0029 without restraints) Performing minimization step: 9. Total energy = 172030613.1364 kcal/mol (169829205.8862 without restraints) Performing minimization step: 10. Total energy = 154474540.2822 kcal/mol (152526277.4451 without restraints) Performing minimization step: 11. Total energy = 138928248.6771 kcal/mol (137201975.8651 without restraints) Performing minimization step: 12. Total energy = 125145409.5976 kcal/mol (123614035.5428 without restraints) Performing minimization step: 13. Total energy = 112911681.8890 kcal/mol (111551617.3750 without restraints) Performing minimization step: 14. Total energy = 102040313.2087 kcal/mol (100830991.5982 without restraints) Performing minimization step: 15. Total energy = 92368378.3950 kcal/mol (91291845.3077 without restraints) Performing minimization step: 16. Total energy = 83753558.1944 kcal/mol (82794119.8808 without restraints) Performing minimization step: 17. Total energy = 76071377.0006 kcal/mol (75215298.6150 without restraints) Performing minimization step: 18. Total energy = 69212831.1001 kcal/mol (68448077.4593 without restraints) Performing minimization step: 19. Total energy = 63082349.6567 kcal/mol (62398362.2269 without restraints) Performing minimization step: 20. Total energy = 57596039.6359 kcal/mol (56983544.4604 without restraints) Performing minimization step: 21. Total energy = 52680173.3953 kcal/mol (52131015.4830 without restraints) Performing minimization step: 22. Total energy = 48269883.9603 kcal/mol (47776884.3393 without restraints) Performing minimization step: 23. Total energy = 44308038.2997 kcal/mol (43864870.5086 without restraints) Performing minimization step: 24. Total energy = 40744263.3497 kcal/mol (40345346.6197 without restraints) Performing minimization step: 25. Total energy = 37534103.2682 kcal/mol (37174510.0533 without restraints) Performing minimization step: 26. Total energy = 34638289.5356 kcal/mol (34313665.3842 without restraints) Performing minimization step: 27. Total energy = 32022108.1471 kcal/mol (31728602.1955 without restraints) Performing minimization step: 28. Total energy = 29654850.3687 kcal/mol (29389054.9765 without restraints) Performing minimization step: 29. Total energy = 27509335.3916 kcal/mol (27268233.6402 without restraints) Performing minimization step: 30. Total energy = 25561494.8096 kcal/mol (25342414.7594 without restraints) Performing minimization step: 31. Total energy = 23790010.1979 kcal/mol (23590584.9470 without restraints) Performing minimization step: 32. Total energy = 22175996.2411 kcal/mol (21994128.9553 without restraints) Performing minimization step: 33. Total energy = 20702722.8817 kcal/mol (20536556.0827 without restraints) Performing minimization step: 34. Total energy = 19355370.8728 kcal/mol (19203259.3693 without restraints) Performing minimization step: 35. Total energy = 18120815.9339 kcal/mol (17981302.8740 without restraints) Performing minimization step: 36. Total energy = 16987437.4528 kcal/mol (16859233.0592 without restraints) Performing minimization step: 37. Total energy = 15944948.3415 kcal/mol (15826910.9659 without restraints) Performing minimization step: 38. Total energy = 14984243.2525 kcal/mol (14875362.4509 without restraints) Performing minimization step: 39. Total energy = 14097262.8771 kcal/mol (13996644.2642 without restraints) Performing minimization step: 40. Total energy = 13276872.4811 kcal/mol (13183724.1696 without restraints) Performing minimization step: 41. Total energy = 12516753.1865 kcal/mol (12430373.6526 without restraints) Performing minimization step: 42. Total energy = 11811304.7718 kcal/mol (11731072.0154 without restraints) Performing minimization step: 43. Total energy = 11155558.9608 kcal/mol (11080920.8488 without restraints) Performing minimization step: 44. Total energy = 10545102.3011 kcal/mol (10475567.9927 without restraints) Performing minimization step: 45. Total energy = 9976007.8172 kcal/mol (9911140.1802 without restraints) Performing minimization step: 46. Total energy = 9444774.6751 kcal/mol (9384183.6053 without restraints) Performing minimization step: 47. Total energy = 8948275.1353 kcal/mol (8891611.6946 without restraints) Performing minimization step: 48. Total energy = 8483708.0896 kcal/mol (8430659.3819 without restraints) Performing minimization step: 49. Total energy = 8048558.5093 kcal/mol (7998843.2164 without restraints) Performing minimization step: 50. Total energy = 7640562.1607 kcal/mol (7593926.6637 without restraints) Performing minimization step: 51. Total energy = 7257674.9805 kcal/mol (7213889.9974 without restraints) Performing minimization step: 52. Total energy = 6898046.5451 kcal/mol (6856904.2205 without restraints) Performing minimization step: 53. Total energy = 6559997.1152 kcal/mol (6521308.5036 without restraints) Performing minimization step: 54. Total energy = 6241997.7847 kcal/mol (6205590.6738 without restraints) Performing minimization step: 55. Total energy = 5942653.3123 kcal/mol (5908370.3410 without restraints) Performing minimization step: 56. Total energy = 5660687.2634 kcal/mol (5628384.2918 without restraints) Performing minimization step: 57. Total energy = 5394929.1356 kcal/mol (5364473.8315 without restraints) Performing minimization step: 58. Total energy = 5144303.1818 kcal/mol (5115573.7927 without restraints) Performing minimization step: 59. Total energy = 4907818.6872 kcal/mol (4880702.9700 without restraints) Performing minimization step: 60. Total energy = 4684561.4878 kcal/mol (4658955.7746 without restraints) Performing minimization step: 61. Total energy = 4473686.5509 kcal/mol (4449494.9298 without restraints) Performing minimization step: 62. Total energy = 4274411.4638 kcal/mol (4251545.0595 without restraints) Performing minimization step: 63. Total energy = 4086010.7009 kcal/mol (4064387.0393 without restraints) Performing minimization step: 64. Total energy = 3907810.5577 kcal/mol (3887353.0044 without restraints) Performing minimization step: 65. Total energy = 3739184.6598 kcal/mol (3719821.9203 without restraints) Performing minimization step: 66. Total energy = 3579549.9661 kcal/mol (3561215.6412 without restraints) Performing minimization step: 67. Total energy = 3428363.2002 kcal/mol (3410995.3879 without restraints) Performing minimization step: 68. Total energy = 3285117.6532 kcal/mol (3268658.5911 without restraints) Performing minimization step: 69. Total energy = 3149340.3098 kcal/mol (3133736.0537 without restraints) Performing minimization step: 70. Total energy = 3020589.2557 kcal/mol (3005789.3890 without restraints) Performing minimization step: 71. Total energy = 2898451.3344 kcal/mol (2884408.7046 without restraints) Performing minimization step: 72. Total energy = 2782540.0186 kcal/mol (2769210.4984 without restraints) Performing minimization step: 73. Total energy = 2672493.4770 kcal/mol (2659835.7463 without restraints) Performing minimization step: 74. Total energy = 2567972.8089 kcal/mol (2555948.1561 without restraints) Performing minimization step: 75. Total energy = 2468660.4320 kcal/mol (2457232.5717 without restraints) Performing minimization step: 76. Total energy = 2374258.6042 kcal/mol (2363393.5101 without restraints) Performing minimization step: 77. Total energy = 2284488.0665 kcal/mol (2274153.8184 without restraints) Performing minimization step: 78. Total energy = 2199086.7953 kcal/mol (2189253.4372 without restraints) Performing minimization step: 79. Total energy = 2117808.8515 kcal/mol (2108448.2616 without restraints) Performing minimization step: 80. Total energy = 2040423.3179 kcal/mol (2031509.0879 without restraints) Performing minimization step: 81. Total energy = 1966713.3178 kcal/mol (1958220.6416 without restraints) Performing minimization step: 82. Total energy = 1896475.1051 kcal/mol (1888380.6752 without restraints) Performing minimization step: 83. Total energy = 1829517.2203 kcal/mol (1821799.1321 without restraints) Performing minimization step: 84. Total energy = 1765659.7073 kcal/mol (1758297.3701 without restraints) Performing minimization step: 85. Total energy = 1704733.3853 kcal/mol (1697707.4389 without restraints) Performing minimization step: 86. Total energy = 1646579.1702 kcal/mol (1639871.4081 without restraints) Performing minimization step: 87. Total energy = 1591047.4432 kcal/mol (1584640.7405 without restraints) Performing minimization step: 88. Total energy = 1537997.4610 kcal/mol (1531875.7074 without restraints) Performing minimization step: 89. Total energy = 1487296.8061 kcal/mol (1481444.8427 without restraints) Performing minimization step: 90. Total energy = 1438820.8717 kcal/mol (1433224.4327 without restraints) Performing minimization step: 91. Total energy = 1392452.3817 kcal/mol (1387098.0392 without restraints) Performing minimization step: 92. Total energy = 1348080.9395 kcal/mol (1342956.0524 without restraints) Performing minimization step: 93. Total energy = 1305602.6075 kcal/mol (1300695.2731 without restraints) Performing minimization step: 94. Total energy = 1264919.5109 kcal/mol (1260218.5200 without restraints) Performing minimization step: 95. Total energy = 1225939.4684 kcal/mol (1221434.2627 without restraints) Performing minimization step: 96. Total energy = 1188575.6439 kcal/mol (1184256.2763 without restraints) Performing minimization step: 97. Total energy = 1152746.2208 kcal/mol (1148603.3185 without restraints) Performing minimization step: 98. Total energy = 1118374.0962 kcal/mol (1114398.8252 without restraints) Performing minimization step: 99. Total energy = 1085386.5932 kcal/mol (1081570.6259 without restraints) Performing minimization step: 100. Total energy = 1053715.1914 kcal/mol (1050050.6754 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 101. Total energy = 1023295.2735 kcal/mol (1019774.8028 without restraints) Performing minimization step: 102. Total energy = 994065.8875 kcal/mol (990682.4752 without restraints) Performing minimization step: 103. Total energy = 965969.5231 kcal/mol (962716.5761 without restraints) Performing minimization step: 104. Total energy = 938951.9021 kcal/mol (935823.1967 without restraints) Performing minimization step: 105. Total energy = 912961.7813 kcal/mol (909951.4410 without restraints) Performing minimization step: 106. Total energy = 887950.7677 kcal/mol (885053.2421 without restraints) Performing minimization step: 107. Total energy = 863873.1451 kcal/mol (861083.1895 without restraints) Performing minimization step: 108. Total energy = 840685.7107 kcal/mol (837998.3683 without restraints) Performing minimization step: 109. Total energy = 818347.6229 kcal/mol (815758.2069 without restraints) Performing minimization step: 110. Total energy = 796820.2582 kcal/mol (794324.3352 without restraints) Performing minimization step: 111. Total energy = 776067.0754 kcal/mol (773660.4505 without restraints) Performing minimization step: 112. Total energy = 756053.4917 kcal/mol (753732.1940 without restraints) Performing minimization step: 113. Total energy = 736746.7633 kcal/mol (734507.0321 without restraints) Performing minimization step: 114. Total energy = 718115.8752 kcal/mol (715954.1478 without restraints) Performing minimization step: 115. Total energy = 700131.4373 kcal/mol (698044.3367 without restraints) Performing minimization step: 116. Total energy = 682765.5877 kcal/mol (680749.9120 without restraints) Performing minimization step: 117. Total energy = 665991.9017 kcal/mol (664044.6136 without restraints) Performing minimization step: 118. Total energy = 649785.3067 kcal/mol (647903.5234 without restraints) Performing minimization step: 119. Total energy = 634122.0031 kcal/mol (632302.9876 without restraints) Performing minimization step: 120. Total energy = 618979.3883 kcal/mol (617220.5408 without restraints) Performing minimization step: 121. Total energy = 604335.9883 kcal/mol (602634.8383 without restraints) Performing minimization step: 122. Total energy = 590171.3918 kcal/mol (588525.5904 without restraints) Performing minimization step: 123. Total energy = 576466.1890 kcal/mol (574873.5021 without restraints) Performing minimization step: 124. Total energy = 563201.9144 kcal/mol (561660.2162 without restraints) Performing minimization step: 125. Total energy = 550360.9933 kcal/mol (548868.2600 without restraints) Performing minimization step: 126. Total energy = 537926.6914 kcal/mol (536480.9956 without restraints) Performing minimization step: 127. Total energy = 525883.0679 kcal/mol (524482.5731 without restraints) Performing minimization step: 128. Total energy = 514214.9312 kcal/mol (512857.8870 without restraints) Performing minimization step: 129. Total energy = 502907.7982 kcal/mol (501592.5354 without restraints) Performing minimization step: 130. Total energy = 491947.8543 kcal/mol (490672.7805 without restraints) Performing minimization step: 131. Total energy = 481321.9188 kcal/mol (480085.5142 without restraints) Performing minimization step: 132. Total energy = 471017.4096 kcal/mol (469818.2232 without restraints) Performing minimization step: 133. Total energy = 461022.3116 kcal/mol (459858.9576 without restraints) Performing minimization step: 134. Total energy = 451325.1469 kcal/mol (450196.3012 without restraints) Performing minimization step: 135. Total energy = 441914.9462 kcal/mol (440819.3430 without restraints) Performing minimization step: 136. Total energy = 432781.2226 kcal/mol (431717.6515 without restraints) Performing minimization step: 137. Total energy = 423913.9466 kcal/mol (422881.2500 without restraints) Performing minimization step: 138. Total energy = 415303.5225 kcal/mol (414300.5926 without restraints) Performing minimization step: 139. Total energy = 406940.7668 kcal/mol (405966.5430 without restraints) Performing minimization step: 140. Total energy = 398816.8870 kcal/mol (397870.3539 without restraints) Performing minimization step: 141. Total energy = 390923.4620 kcal/mol (390003.6468 without restraints) Performing minimization step: 142. Total energy = 383252.4240 kcal/mol (382358.3948 without restraints) Performing minimization step: 143. Total energy = 375796.0412 kcal/mol (374926.9043 without restraints) Performing minimization step: 144. Total energy = 368546.9006 kcal/mol (367701.7995 without restraints) Performing minimization step: 145. Total energy = 361497.8936 kcal/mol (360676.0065 without restraints) Performing minimization step: 146. Total energy = 354642.2005 kcal/mol (353842.7391 without restraints) Performing minimization step: 147. Total energy = 347973.2772 kcal/mol (347195.4847 without restraints) Performing minimization step: 148. Total energy = 341484.8419 kcal/mol (340727.9919 without restraints) Performing minimization step: 149. Total energy = 335170.8628 kcal/mol (334434.2577 without restraints) Performing minimization step: 150. Total energy = 329025.5465 kcal/mol (328308.5161 without restraints) Performing minimization step: 151. Total energy = 323043.3269 kcal/mol (322345.2272 without restraints) Performing minimization step: 152. Total energy = 317218.8546 kcal/mol (316539.0666 without restraints) Performing minimization step: 153. Total energy = 311546.9872 kcal/mol (310884.9159 without restraints) Performing minimization step: 154. Total energy = 306022.7800 kcal/mol (305377.8528 without restraints) Performing minimization step: 155. Total energy = 300641.4764 kcal/mol (300013.1430 without restraints) Performing minimization step: 156. Total energy = 295398.5006 kcal/mol (294786.2310 without restraints) Performing minimization step: 157. Total energy = 290289.4485 kcal/mol (289692.7329 without restraints) Performing minimization step: 158. Total energy = 285310.0809 kcal/mol (284728.4282 without restraints) Performing minimization step: 159. Total energy = 280456.3156 kcal/mol (279889.2531 without restraints) Performing minimization step: 160. Total energy = 275724.2213 kcal/mol (275171.2936 without restraints) Performing minimization step: 161. Total energy = 271110.0105 kcal/mol (270570.7788 without restraints) Performing minimization step: 162. Total energy = 266610.0337 kcal/mol (266084.0752 without restraints) Performing minimization step: 163. Total energy = 262220.7732 kcal/mol (261707.6802 without restraints) Performing minimization step: 164. Total energy = 257938.8380 kcal/mol (257438.2175 without restraints) Performing minimization step: 165. Total energy = 253760.9578 kcal/mol (253272.4309 without restraints) Performing minimization step: 166. Total energy = 249683.9789 kcal/mol (249207.1798 without restraints) Performing minimization step: 167. Total energy = 245704.8585 kcal/mol (245239.4346 without restraints) Performing minimization step: 168. Total energy = 241820.6606 kcal/mol (241366.2714 without restraints) Performing minimization step: 169. Total energy = 238028.5518 kcal/mol (237584.8687 without restraints) Performing minimization step: 170. Total energy = 234325.7965 kcal/mol (233892.5025 without restraints) Performing minimization step: 171. Total energy = 230709.7539 kcal/mol (230286.5425 without restraints) Performing minimization step: 172. Total energy = 227177.8735 kcal/mol (226764.4489 without restraints) Performing minimization step: 173. Total energy = 223727.6919 kcal/mol (223323.7683 without restraints) Performing minimization step: 174. Total energy = 220356.8291 kcal/mol (219962.1305 without restraints) Performing minimization step: 175. Total energy = 217062.9855 kcal/mol (216677.2451 without restraints) Performing minimization step: 176. Total energy = 213843.9390 kcal/mol (213466.8988 without restraints) Performing minimization step: 177. Total energy = 210697.5413 kcal/mol (210328.9522 without restraints) Performing minimization step: 178. Total energy = 207621.7160 kcal/mol (207261.3368 without restraints) Performing minimization step: 179. Total energy = 204614.4551 kcal/mol (204262.0529 without restraints) Performing minimization step: 180. Total energy = 201673.8169 kcal/mol (201329.1664 without restraints) Performing minimization step: 181. Total energy = 198797.9236 kcal/mol (198460.8067 without restraints) Performing minimization step: 182. Total energy = 195984.9584 kcal/mol (195655.1642 without restraints) Performing minimization step: 183. Total energy = 193233.1638 kcal/mol (192910.4884 without restraints) Performing minimization step: 184. Total energy = 190540.8394 kcal/mol (190225.0852 without restraints) Performing minimization step: 185. Total energy = 187906.3394 kcal/mol (187597.3154 without restraints) Performing minimization step: 186. Total energy = 185328.0711 kcal/mol (185025.5923 without restraints) Performing minimization step: 187. Total energy = 182804.4928 kcal/mol (182508.3801 without restraints) Performing minimization step: 188. Total energy = 180334.1118 kcal/mol (180044.1920 without restraints) Performing minimization step: 189. Total energy = 177915.4832 kcal/mol (177631.5884 without restraints) Performing minimization step: 190. Total energy = 175547.2076 kcal/mol (175269.1754 without restraints) Performing minimization step: 191. Total energy = 173227.9301 kcal/mol (172955.6030 without restraints) Performing minimization step: 192. Total energy = 170956.3382 kcal/mol (170689.5638 without restraints) Performing minimization step: 193. Total energy = 168731.1607 kcal/mol (168469.7913 without restraints) Performing minimization step: 194. Total energy = 166551.1662 kcal/mol (166295.0587 without restraints) Performing minimization step: 195. Total energy = 164415.1616 kcal/mol (164164.1774 without restraints) Performing minimization step: 196. Total energy = 162321.9909 kcal/mol (162075.9959 without restraints) Performing minimization step: 197. Total energy = 160270.5342 kcal/mol (160029.3980 without restraints) Performing minimization step: 198. Total energy = 158259.7059 kcal/mol (158023.3025 without restraints) Performing minimization step: 199. Total energy = 156288.4539 kcal/mol (156056.6611 without restraints) Performing minimization step: 200. Total energy = 154355.7587 kcal/mol (154128.4579 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 201. Total energy = 152460.6316 kcal/mol (152237.7080 without restraints) Performing minimization step: 202. Total energy = 150602.1146 kcal/mol (150383.4568 without restraints) Performing minimization step: 203. Total energy = 148779.2785 kcal/mol (148564.7786 without restraints) Performing minimization step: 204. Total energy = 146991.2225 kcal/mol (146780.7757 without restraints) Performing minimization step: 205. Total energy = 145237.0731 kcal/mol (145030.5779 without restraints) Performing minimization step: 206. Total energy = 143515.9831 kcal/mol (143313.3412 without restraints) Performing minimization step: 207. Total energy = 141827.1310 kcal/mol (141628.2467 without restraints) Performing minimization step: 208. Total energy = 140169.7198 kcal/mol (139974.5005 without restraints) Performing minimization step: 209. Total energy = 138542.9763 kcal/mol (138351.3322 without restraints) Performing minimization step: 210. Total energy = 136946.1507 kcal/mol (136757.9945 without restraints) Performing minimization step: 211. Total energy = 135378.5152 kcal/mol (135193.7624 without restraints) Performing minimization step: 212. Total energy = 133839.3638 kcal/mol (133657.9322 without restraints) Performing minimization step: 213. Total energy = 132328.0115 kcal/mol (132149.8215 without restraints) Performing minimization step: 214. Total energy = 130843.7929 kcal/mol (130668.7672 without restraints) Performing minimization step: 215. Total energy = 129386.0628 kcal/mol (129214.1263 without restraints) Performing minimization step: 216. Total energy = 127954.1947 kcal/mol (127785.2746 without restraints) Performing minimization step: 217. Total energy = 126547.5803 kcal/mol (126381.6058 without restraints) Performing minimization step: 218. Total energy = 125165.6292 kcal/mol (125002.5317 without restraints) Performing minimization step: 219. Total energy = 123807.7679 kcal/mol (123647.4807 without restraints) Performing minimization step: 220. Total energy = 122473.4396 kcal/mol (122315.8979 without restraints) Performing minimization step: 221. Total energy = 121162.1036 kcal/mol (121007.2445 without restraints) Performing minimization step: 222. Total energy = 119873.2345 kcal/mol (119720.9969 without restraints) Performing minimization step: 223. Total energy = 118606.3222 kcal/mol (118456.6467 without restraints) Performing minimization step: 224. Total energy = 117360.8707 kcal/mol (117213.6997 without restraints) Performing minimization step: 225. Total energy = 116136.3985 kcal/mol (115991.6759 without restraints) Performing minimization step: 226. Total energy = 114932.4375 kcal/mol (114790.1088 without restraints) Performing minimization step: 227. Total energy = 113748.5327 kcal/mol (113608.5451 without restraints) Performing minimization step: 228. Total energy = 112584.2419 kcal/mol (112446.5439 without restraints) Performing minimization step: 229. Total energy = 111439.1353 kcal/mol (111303.6768 without restraints) Performing minimization step: 230. Total energy = 110312.7949 kcal/mol (110179.5273 without restraints) Performing minimization step: 231. Total energy = 109204.8144 kcal/mol (109073.6904 without restraints) Performing minimization step: 232. Total energy = 108114.7985 kcal/mol (107985.7722 without restraints) Performing minimization step: 233. Total energy = 107042.3629 kcal/mol (106915.3894 without restraints) Performing minimization step: 234. Total energy = 105987.1336 kcal/mol (105862.1695 without restraints) Performing minimization step: 235. Total energy = 104948.7469 kcal/mol (104825.7497 without restraints) Performing minimization step: 236. Total energy = 103926.8487 kcal/mol (103805.7773 without restraints) Performing minimization step: 237. Total energy = 102921.0947 kcal/mol (102801.9091 without restraints) Performing minimization step: 238. Total energy = 101931.1496 kcal/mol (101813.8105 without restraints) Performing minimization step: 239. Total energy = 100956.6869 kcal/mol (100841.1564 without restraints) Performing minimization step: 240. Total energy = 99997.3889 kcal/mol (99883.6301 without restraints) Performing minimization step: 241. Total energy = 99052.9463 kcal/mol (98940.9230 without restraints) Performing minimization step: 242. Total energy = 98123.0578 kcal/mol (98012.7350 without restraints) Performing minimization step: 243. Total energy = 97207.4299 kcal/mol (97098.7734 without restraints) Performing minimization step: 244. Total energy = 96305.7767 kcal/mol (96198.7533 without restraints) Performing minimization step: 245. Total energy = 95417.8198 kcal/mol (95312.3969 without restraints) Performing minimization step: 246. Total energy = 94543.2878 kcal/mol (94439.4338 without restraints) Performing minimization step: 247. Total energy = 93681.9161 kcal/mol (93579.6002 without restraints) Performing minimization step: 248. Total energy = 92833.4469 kcal/mol (92732.6392 without restraints) Performing minimization step: 249. Total energy = 91997.6290 kcal/mol (91898.3001 without restraints) Performing minimization step: 250. Total energy = 91174.2173 kcal/mol (91076.3386 without restraints) Performing minimization step: 251. Total energy = 90362.9729 kcal/mol (90266.5166 without restraints) Performing minimization step: 252. Total energy = 89563.6626 kcal/mol (89468.6015 without restraints) Performing minimization step: 253. Total energy = 88776.0592 kcal/mol (88682.3668 without restraints) Performing minimization step: 254. Total energy = 87999.9409 kcal/mol (87907.5914 without restraints) Performing minimization step: 255. Total energy = 87235.0912 kcal/mol (87144.0593 without restraints) Performing minimization step: 256. Total energy = 86481.2991 kcal/mol (86391.5602 without restraints) Performing minimization step: 257. Total energy = 85738.3583 kcal/mol (85649.8884 without restraints) Performing minimization step: 258. Total energy = 85006.0676 kcal/mol (84918.8433 without restraints) Performing minimization step: 259. Total energy = 84284.2307 kcal/mol (84198.2290 without restraints) Performing minimization step: 260. Total energy = 83572.6557 kcal/mol (83487.8542 without restraints) Performing minimization step: 261. Total energy = 82871.1552 kcal/mol (82787.5320 without restraints) Performing minimization step: 262. Total energy = 82179.5462 kcal/mol (82097.0801 without restraints) Performing minimization step: 263. Total energy = 81497.6501 kcal/mol (81416.3202 without restraints) Performing minimization step: 264. Total energy = 80825.2921 kcal/mol (80745.0780 without restraints) Performing minimization step: 265. Total energy = 80162.3015 kcal/mol (80083.1833 without restraints) Performing minimization step: 266. Total energy = 79508.5116 kcal/mol (79430.4699 without restraints) Performing minimization step: 267. Total energy = 78863.7594 kcal/mol (78786.7751 without restraints) Performing minimization step: 268. Total energy = 78227.8854 kcal/mol (78151.9399 without restraints) Performing minimization step: 269. Total energy = 77600.7338 kcal/mol (77525.8089 without restraints) Performing minimization step: 270. Total energy = 76982.1522 kcal/mol (76908.2302 without restraints) Performing minimization step: 271. Total energy = 76371.9916 kcal/mol (76299.0550 without restraints) Performing minimization step: 272. Total energy = 75770.1062 kcal/mol (75698.1381 without restraints) Performing minimization step: 273. Total energy = 75176.3534 kcal/mol (75105.3370 without restraints) Performing minimization step: 274. Total energy = 74590.5937 kcal/mol (74520.5128 without restraints) Performing minimization step: 275. Total energy = 74012.6905 kcal/mol (73943.5292 without restraints) Performing minimization step: 276. Total energy = 73442.5102 kcal/mol (73374.2528 without restraints) Performing minimization step: 277. Total energy = 72879.9220 kcal/mol (72812.5533 without restraints) Performing minimization step: 278. Total energy = 72324.7979 kcal/mol (72258.3030 without restraints) Performing minimization step: 279. Total energy = 71777.0127 kcal/mol (71711.3768 without restraints) Performing minimization step: 280. Total energy = 71236.4434 kcal/mol (71171.6524 without restraints) Performing minimization step: 281. Total energy = 70702.9701 kcal/mol (70639.0097 without restraints) Performing minimization step: 282. Total energy = 70176.4749 kcal/mol (70113.3315 without restraints) Performing minimization step: 283. Total energy = 69656.8424 kcal/mol (69594.5026 without restraints) Performing minimization step: 284. Total energy = 69143.9601 kcal/mol (69082.4106 without restraints) Performing minimization step: 285. Total energy = 68637.7170 kcal/mol (68576.9449 without restraints) Performing minimization step: 286. Total energy = 68138.0049 kcal/mol (68077.9975 without restraints) Performing minimization step: 287. Total energy = 67644.7173 kcal/mol (67585.4623 without restraints) Performing minimization step: 288. Total energy = 67157.7503 kcal/mol (67099.2354 without restraints) Performing minimization step: 289. Total energy = 66677.0018 kcal/mol (66619.2151 without restraints) Performing minimization step: 290. Total energy = 66202.3716 kcal/mol (66145.3015 without restraints) Performing minimization step: 291. Total energy = 65733.7618 kcal/mol (65677.3968 without restraints) Performing minimization step: 292. Total energy = 65271.0762 kcal/mol (65215.4050 without restraints) Performing minimization step: 293. Total energy = 64814.2204 kcal/mol (64759.2321 without restraints) Performing minimization step: 294. Total energy = 64363.1021 kcal/mol (64308.7858 without restraints) Performing minimization step: 295. Total energy = 63917.6304 kcal/mol (63863.9755 without restraints) Performing minimization step: 296. Total energy = 63477.7165 kcal/mol (63424.7126 without restraints) Performing minimization step: 297. Total energy = 63043.2732 kcal/mol (62990.9102 without restraints) Performing minimization step: 298. Total energy = 62614.2146 kcal/mol (62562.4824 without restraints) Performing minimization step: 299. Total energy = 62190.4569 kcal/mol (62139.3457 without restraints) Performing minimization step: 300. Total energy = 61771.9176 kcal/mol (61721.4178 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 301. Total energy = 61358.5159 kcal/mol (61308.6180 without restraints) Performing minimization step: 302. Total energy = 60950.1723 kcal/mol (60900.8670 without restraints) Performing minimization step: 303. Total energy = 60546.8090 kcal/mol (60498.0873 without restraints) Performing minimization step: 304. Total energy = 60148.3496 kcal/mol (60100.2025 without restraints) Performing minimization step: 305. Total energy = 59754.7190 kcal/mol (59707.1378 without restraints) Performing minimization step: 306. Total energy = 59365.8435 kcal/mol (59318.8194 without restraints) Performing minimization step: 307. Total energy = 58981.6503 kcal/mol (58935.1749 without restraints) Performing minimization step: 308. Total energy = 58602.0690 kcal/mol (58556.1340 without restraints) Performing minimization step: 309. Total energy = 58227.0296 kcal/mol (58181.6269 without restraints) Performing minimization step: 310. Total energy = 57856.4636 kcal/mol (57811.5851 without restraints) Performing minimization step: 311. Total energy = 57490.3036 kcal/mol (57445.9415 without restraints) Performing minimization step: 312. Total energy = 57128.4836 kcal/mol (57084.6302 without restraints) Performing minimization step: 313. Total energy = 56770.9387 kcal/mol (56727.5863 without restraints) Performing minimization step: 314. Total energy = 56417.6051 kcal/mol (56374.7464 without restraints) Performing minimization step: 315. Total energy = 56068.4202 kcal/mol (56026.0477 without restraints) Performing minimization step: 316. Total energy = 55723.3224 kcal/mol (55681.4290 without restraints) Performing minimization step: 317. Total energy = 55382.2513 kcal/mol (55340.8299 without restraints) Performing minimization step: 318. Total energy = 55045.1474 kcal/mol (55004.1911 without restraints) Performing minimization step: 319. Total energy = 54711.9524 kcal/mol (54671.4543 without restraints) Performing minimization step: 320. Total energy = 54382.6088 kcal/mol (54342.5623 without restraints) Performing minimization step: 321. Total energy = 54057.0604 kcal/mol (54017.4589 without restraints) Performing minimization step: 322. Total energy = 53735.2517 kcal/mol (53696.0886 without restraints) Performing minimization step: 323. Total energy = 53417.1282 kcal/mol (53378.3971 without restraints) Performing minimization step: 324. Total energy = 53102.6363 kcal/mol (53064.3311 without restraints) Performing minimization step: 325. Total energy = 52791.7236 kcal/mol (52753.8380 without restraints) Performing minimization step: 326. Total energy = 52484.3381 kcal/mol (52446.8661 without restraints) Performing minimization step: 327. Total energy = 52180.4291 kcal/mol (52143.3648 without restraints) Performing minimization step: 328. Total energy = 51879.9465 kcal/mol (51843.2840 without restraints) Performing minimization step: 329. Total energy = 51582.8412 kcal/mol (51546.5748 without restraints) Performing minimization step: 330. Total energy = 51289.0649 kcal/mol (51253.1888 without restraints) Performing minimization step: 331. Total energy = 50998.5699 kcal/mol (50963.0787 without restraints) Performing minimization step: 332. Total energy = 50711.3096 kcal/mol (50676.1977 without restraints) Performing minimization step: 333. Total energy = 50427.2379 kcal/mol (50392.5000 without restraints) Performing minimization step: 334. Total energy = 50146.3097 kcal/mol (50111.9406 without restraints) Performing minimization step: 335. Total energy = 49868.4805 kcal/mol (49834.4749 without restraints) Performing minimization step: 336. Total energy = 49593.7067 kcal/mol (49560.0594 without restraints) Performing minimization step: 337. Total energy = 49321.9450 kcal/mol (49288.6511 without restraints) Performing minimization step: 338. Total energy = 49053.1533 kcal/mol (49020.2078 without restraints) Performing minimization step: 339. Total energy = 48787.2899 kcal/mol (48754.6879 without restraints) Performing minimization step: 340. Total energy = 48524.3139 kcal/mol (48492.0506 without restraints) Performing minimization step: 341. Total energy = 48264.1850 kcal/mol (48232.2557 without restraints) Performing minimization step: 342. Total energy = 48006.8635 kcal/mol (47975.2637 without restraints) Performing minimization step: 343. Total energy = 47752.3106 kcal/mol (47721.0356 without restraints) Performing minimization step: 344. Total energy = 47500.4878 kcal/mol (47469.5331 without restraints) Performing minimization step: 345. Total energy = 47251.3574 kcal/mol (47220.7186 without restraints) Performing minimization step: 346. Total energy = 47004.8823 kcal/mol (46974.5551 without restraints) Performing minimization step: 347. Total energy = 46761.0259 kcal/mol (46731.0060 without restraints) Performing minimization step: 348. Total energy = 46519.7522 kcal/mol (46490.0355 without restraints) Performing minimization step: 349. Total energy = 46281.0260 kcal/mol (46251.6082 without restraints) Performing minimization step: 350. Total energy = 46044.8123 kcal/mol (46015.6893 without restraints) Performing minimization step: 351. Total energy = 45811.0769 kcal/mol (45782.2448 without restraints) Performing minimization step: 352. Total energy = 45579.7860 kcal/mol (45551.2409 without restraints) Performing minimization step: 353. Total energy = 45350.9066 kcal/mol (45322.6445 without restraints) Performing minimization step: 354. Total energy = 45124.4059 kcal/mol (45096.4230 without restraints) Performing minimization step: 355. Total energy = 44900.2517 kcal/mol (44872.5443 without restraints) Performing minimization step: 356. Total energy = 44678.4124 kcal/mol (44650.9768 without restraints) Performing minimization step: 357. Total energy = 44458.8569 kcal/mol (44431.6894 without restraints) Performing minimization step: 358. Total energy = 44241.5545 kcal/mol (44214.6514 without restraints) Performing minimization step: 359. Total energy = 44026.4750 kcal/mol (43999.8329 without restraints) Performing minimization step: 360. Total energy = 43813.5886 kcal/mol (43787.2041 without restraints) Performing minimization step: 361. Total energy = 43602.8662 kcal/mol (43576.7358 without restraints) Performing minimization step: 362. Total energy = 43394.2790 kcal/mol (43368.3992 without restraints) Performing minimization step: 363. Total energy = 43187.7985 kcal/mol (43162.1661 without restraints) Performing minimization step: 364. Total energy = 42983.3968 kcal/mol (42958.0086 without restraints) Performing minimization step: 365. Total energy = 42781.0466 kcal/mol (42755.8992 without restraints) Performing minimization step: 366. Total energy = 42580.7206 kcal/mol (42555.8110 without restraints) Performing minimization step: 367. Total energy = 42382.3923 kcal/mol (42357.7174 without restraints) Performing minimization step: 368. Total energy = 42186.0355 kcal/mol (42161.5920 without restraints) Performing minimization step: 369. Total energy = 41991.6242 kcal/mol (41967.4093 without restraints) Performing minimization step: 370. Total energy = 41799.1331 kcal/mol (41775.1438 without restraints) Performing minimization step: 371. Total energy = 41608.5372 kcal/mol (41584.7705 without restraints) Performing minimization step: 372. Total energy = 41419.8117 kcal/mol (41396.2647 without restraints) Performing minimization step: 373. Total energy = 41232.9324 kcal/mol (41209.6023 without restraints) Performing minimization step: 374. Total energy = 41047.8752 kcal/mol (41024.7593 without restraints) Performing minimization step: 375. Total energy = 40864.6169 kcal/mol (40841.7123 without restraints) Performing minimization step: 376. Total energy = 40683.1340 kcal/mol (40660.4380 without restraints) Performing minimization step: 377. Total energy = 40503.4037 kcal/mol (40480.9136 without restraints) Performing minimization step: 378. Total energy = 40325.4035 kcal/mol (40303.1168 without restraints) Performing minimization step: 379. Total energy = 40149.1113 kcal/mol (40127.0253 without restraints) Performing minimization step: 380. Total energy = 39974.5053 kcal/mol (39952.6174 without restraints) Performing minimization step: 381. Total energy = 39801.5641 kcal/mol (39779.8719 without restraints) Performing minimization step: 382. Total energy = 39630.2661 kcal/mol (39608.7671 without restraints) Performing minimization step: 383. Total energy = 39460.5907 kcal/mol (39439.2824 without restraints) Performing minimization step: 384. Total energy = 39292.5174 kcal/mol (39271.3974 without restraints) Performing minimization step: 385. Total energy = 39126.0259 kcal/mol (39105.0918 without restraints) Performing minimization step: 386. Total energy = 38961.0962 kcal/mol (38940.3458 without restraints) Performing minimization step: 387. Total energy = 38797.7087 kcal/mol (38777.1397 without restraints) Performing minimization step: 388. Total energy = 38635.8441 kcal/mol (38615.4541 without restraints) Performing minimization step: 389. Total energy = 38475.4834 kcal/mol (38455.2702 without restraints) Performing minimization step: 390. Total energy = 38316.6076 kcal/mol (38296.5690 without restraints) Performing minimization step: 391. Total energy = 38159.1984 kcal/mol (38139.3323 without restraints) Performing minimization step: 392. Total energy = 38003.2374 kcal/mol (37983.5417 without restraints) Performing minimization step: 393. Total energy = 37848.7068 kcal/mol (37829.1793 without restraints) Performing minimization step: 394. Total energy = 37695.5888 kcal/mol (37676.2275 without restraints) Performing minimization step: 395. Total energy = 37543.8661 kcal/mol (37524.6689 without restraints) Performing minimization step: 396. Total energy = 37393.5214 kcal/mol (37374.4862 without restraints) Performing minimization step: 397. Total energy = 37244.5377 kcal/mol (37225.6627 without restraints) Performing minimization step: 398. Total energy = 37096.8985 kcal/mol (37078.1817 without restraints) Performing minimization step: 399. Total energy = 36950.5873 kcal/mol (36932.0268 without restraints) Performing minimization step: 400. Total energy = 36805.5879 kcal/mol (36787.1817 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 401. Total energy = 36661.8844 kcal/mol (36643.6306 without restraints) Performing minimization step: 402. Total energy = 36519.4609 kcal/mol (36501.3578 without restraints) Performing minimization step: 403. Total energy = 36378.3023 kcal/mol (36360.3480 without restraints) Performing minimization step: 404. Total energy = 36238.3928 kcal/mol (36220.5856 without restraints) Performing minimization step: 405. Total energy = 36099.7175 kcal/mol (36082.0555 without restraints) Performing minimization step: 406. Total energy = 35962.2617 kcal/mol (35944.7433 without restraints) Performing minimization step: 407. Total energy = 35826.0108 kcal/mol (35808.6343 without restraints) Performing minimization step: 408. Total energy = 35690.9504 kcal/mol (35673.7140 without restraints) Performing minimization step: 409. Total energy = 35557.0662 kcal/mol (35539.9683 without restraints) Performing minimization step: 410. Total energy = 35424.3440 kcal/mol (35407.3830 without restraints) Performing minimization step: 411. Total energy = 35292.7706 kcal/mol (35275.9448 without restraints) Performing minimization step: 412. Total energy = 35162.3320 kcal/mol (35145.6399 without restraints) Performing minimization step: 413. Total energy = 35033.0149 kcal/mol (35016.4548 without restraints) Performing minimization step: 414. Total energy = 34904.8060 kcal/mol (34888.3765 without restraints) Performing minimization step: 415. Total energy = 34777.6923 kcal/mol (34761.3918 without restraints) Performing minimization step: 416. Total energy = 34651.6611 kcal/mol (34635.4881 without restraints) Performing minimization step: 417. Total energy = 34526.6996 kcal/mol (34510.6526 without restraints) Performing minimization step: 418. Total energy = 34402.7954 kcal/mol (34386.8730 without restraints) Performing minimization step: 419. Total energy = 34279.9361 kcal/mol (34264.1369 without restraints) Performing minimization step: 420. Total energy = 34158.1097 kcal/mol (34142.4322 without restraints) Performing minimization step: 421. Total energy = 34037.3042 kcal/mol (34021.7470 without restraints) Performing minimization step: 422. Total energy = 33917.5078 kcal/mol (33902.0695 without restraints) Performing minimization step: 423. Total energy = 33798.7089 kcal/mol (33783.3882 without restraints) Performing minimization step: 424. Total energy = 33680.8960 kcal/mol (33665.6915 without restraints) Performing minimization step: 425. Total energy = 33564.0579 kcal/mol (33548.9683 without restraints) Performing minimization step: 426. Total energy = 33448.1836 kcal/mol (33433.2076 without restraints) Performing minimization step: 427. Total energy = 33333.2617 kcal/mol (33318.3981 without restraints) Performing minimization step: 428. Total energy = 33219.2816 kcal/mol (33204.5290 without restraints) Performing minimization step: 429. Total energy = 33106.2327 kcal/mol (33091.5899 without restraints) Performing minimization step: 430. Total energy = 32994.1043 kcal/mol (32979.5701 without restraints) Performing minimization step: 431. Total energy = 32882.8862 kcal/mol (32868.4593 without restraints) Performing minimization step: 432. Total energy = 32772.5680 kcal/mol (32758.2473 without restraints) Performing minimization step: 433. Total energy = 32663.1397 kcal/mol (32648.9240 without restraints) Performing minimization step: 434. Total energy = 32554.5914 kcal/mol (32540.4795 without restraints) Performing minimization step: 435. Total energy = 32446.9127 kcal/mol (32432.9034 without restraints) Performing minimization step: 436. Total energy = 32340.0948 kcal/mol (32326.1871 without restraints) Performing minimization step: 437. Total energy = 32234.1278 kcal/mol (32220.3205 without restraints) Performing minimization step: 438. Total energy = 32129.0022 kcal/mol (32115.2942 without restraints) Performing minimization step: 439. Total energy = 32024.7088 kcal/mol (32011.0990 without restraints) Performing minimization step: 440. Total energy = 31921.2384 kcal/mol (31907.7257 without restraints) Performing minimization step: 441. Total energy = 31818.5819 kcal/mol (31805.1653 without restraints) Performing minimization step: 442. Total energy = 31716.7303 kcal/mol (31703.4088 without restraints) Performing minimization step: 443. Total energy = 31615.6750 kcal/mol (31602.4475 without restraints) Performing minimization step: 444. Total energy = 31515.4072 kcal/mol (31502.2727 without restraints) Performing minimization step: 445. Total energy = 31415.9184 kcal/mol (31402.8759 without restraints) Performing minimization step: 446. Total energy = 31317.2000 kcal/mol (31304.2485 without restraints) Performing minimization step: 447. Total energy = 31219.2439 kcal/mol (31206.3824 without restraints) Performing minimization step: 448. Total energy = 31122.0417 kcal/mol (31109.2692 without restraints) Performing minimization step: 449. Total energy = 31025.5853 kcal/mol (31012.9010 without restraints) Performing minimization step: 450. Total energy = 30929.8667 kcal/mol (30917.2696 without restraints) Performing minimization step: 451. Total energy = 30834.8781 kcal/mol (30822.3672 without restraints) Performing minimization step: 452. Total energy = 30740.6116 kcal/mol (30728.1861 without restraints) Performing minimization step: 453. Total energy = 30647.0596 kcal/mol (30634.7185 without restraints) Performing minimization step: 454. Total energy = 30554.2144 kcal/mol (30541.9568 without restraints) Performing minimization step: 455. Total energy = 30462.0685 kcal/mol (30449.8936 without restraints) Performing minimization step: 456. Total energy = 30370.6147 kcal/mol (30358.5216 without restraints) Performing minimization step: 457. Total energy = 30279.8455 kcal/mol (30267.8333 without restraints) Performing minimization step: 458. Total energy = 30189.7537 kcal/mol (30177.8217 without restraints) Performing minimization step: 459. Total energy = 30100.3324 kcal/mol (30088.4796 without restraints) Performing minimization step: 460. Total energy = 30011.5743 kcal/mol (29999.8000 without restraints) Performing minimization step: 461. Total energy = 29923.4728 kcal/mol (29911.7761 without restraints) Performing minimization step: 462. Total energy = 29836.0208 kcal/mol (29824.4010 without restraints) Performing minimization step: 463. Total energy = 29749.2116 kcal/mol (29737.6679 without restraints) Performing minimization step: 464. Total energy = 29663.0387 kcal/mol (29651.5702 without restraints) Performing minimization step: 465. Total energy = 29577.4954 kcal/mol (29566.1014 without restraints) Performing minimization step: 466. Total energy = 29492.5752 kcal/mol (29481.2549 without restraints) Performing minimization step: 467. Total energy = 29408.2717 kcal/mol (29397.0245 without restraints) Performing minimization step: 468. Total energy = 29324.5789 kcal/mol (29313.4039 without restraints) Performing minimization step: 469. Total energy = 29241.4900 kcal/mol (29230.3865 without restraints) Performing minimization step: 470. Total energy = 29158.9991 kcal/mol (29147.9664 without restraints) Performing minimization step: 471. Total energy = 29077.1001 kcal/mol (29066.1376 without restraints) Performing minimization step: 472. Total energy = 28995.7871 kcal/mol (28984.8939 without restraints) Performing minimization step: 473. Total energy = 28915.0540 kcal/mol (28904.2295 without restraints) Performing minimization step: 474. Total energy = 28834.8952 kcal/mol (28824.1388 without restraints) Performing minimization step: 475. Total energy = 28755.3047 kcal/mol (28744.6155 without restraints) Performing minimization step: 476. Total energy = 28676.2765 kcal/mol (28665.6539 without restraints) Performing minimization step: 477. Total energy = 28597.8054 kcal/mol (28587.2489 without restraints) Performing minimization step: 478. Total energy = 28519.8858 kcal/mol (28509.3946 without restraints) Performing minimization step: 479. Total energy = 28442.5122 kcal/mol (28432.0857 without restraints) Performing minimization step: 480. Total energy = 28365.6790 kcal/mol (28355.3165 without restraints) Performing minimization step: 481. Total energy = 28289.3809 kcal/mol (28279.0819 without restraints) Performing minimization step: 482. Total energy = 28213.6126 kcal/mol (28203.3764 without restraints) Performing minimization step: 483. Total energy = 28138.3689 kcal/mol (28128.1949 without restraints) Performing minimization step: 484. Total energy = 28063.6446 kcal/mol (28053.5322 without restraints) Performing minimization step: 485. Total energy = 27989.4346 kcal/mol (27979.3832 without restraints) Performing minimization step: 486. Total energy = 27915.7339 kcal/mol (27905.7429 without restraints) Performing minimization step: 487. Total energy = 27842.5375 kcal/mol (27832.6063 without restraints) Performing minimization step: 488. Total energy = 27769.8404 kcal/mol (27759.9684 without restraints) Performing minimization step: 489. Total energy = 27697.6378 kcal/mol (27687.8245 without restraints) Performing minimization step: 490. Total energy = 27625.9248 kcal/mol (27616.1696 without restraints) Performing minimization step: 491. Total energy = 27554.6968 kcal/mol (27544.9992 without restraints) Performing minimization step: 492. Total energy = 27483.9490 kcal/mol (27474.3084 without restraints) Performing minimization step: 493. Total energy = 27413.6769 kcal/mol (27404.0927 without restraints) Performing minimization step: 494. Total energy = 27343.8757 kcal/mol (27334.3475 without restraints) Performing minimization step: 495. Total energy = 27274.5411 kcal/mol (27265.0682 without restraints) Performing minimization step: 496. Total energy = 27205.6685 kcal/mol (27196.2505 without restraints) Performing minimization step: 497. Total energy = 27137.2535 kcal/mol (27127.8898 without restraints) Performing minimization step: 498. Total energy = 27069.2917 kcal/mol (27059.9819 without restraints) Performing minimization step: 499. Total energy = 27001.7789 kcal/mol (26992.5224 without restraints) Performing minimization step: 500. Total energy = 26934.7108 kcal/mol (26925.5071 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 501. Total energy = 26868.0831 kcal/mol (26858.9317 without restraints) Performing minimization step: 502. Total energy = 26801.8917 kcal/mol (26792.7922 without restraints) Performing minimization step: 503. Total energy = 26736.1324 kcal/mol (26727.0843 without restraints) Performing minimization step: 504. Total energy = 26670.8014 kcal/mol (26661.8041 without restraints) Performing minimization step: 505. Total energy = 26605.8943 kcal/mol (26596.9475 without restraints) Performing minimization step: 506. Total energy = 26541.4074 kcal/mol (26532.5105 without restraints) Performing minimization step: 507. Total energy = 26477.3364 kcal/mol (26468.4890 without restraints) Performing minimization step: 508. Total energy = 26413.6779 kcal/mol (26404.8795 without restraints) Performing minimization step: 509. Total energy = 26350.4279 kcal/mol (26341.6781 without restraints) Performing minimization step: 510. Total energy = 26287.5825 kcal/mol (26278.8809 without restraints) Performing minimization step: 511. Total energy = 26225.1380 kcal/mol (26216.4841 without restraints) Performing minimization step: 512. Total energy = 26163.0908 kcal/mol (26154.4841 without restraints) Performing minimization step: 513. Total energy = 26101.4370 kcal/mol (26092.8771 without restraints) Performing minimization step: 514. Total energy = 26040.1732 kcal/mol (26031.6597 without restraints) Performing minimization step: 515. Total energy = 25979.2956 kcal/mol (25970.8281 without restraints) Performing minimization step: 516. Total energy = 25918.8008 kcal/mol (25910.3789 without restraints) Performing minimization step: 517. Total energy = 25858.6853 kcal/mol (25850.3085 without restraints) Performing minimization step: 518. Total energy = 25798.9456 kcal/mol (25790.6135 without restraints) Performing minimization step: 519. Total energy = 25739.5782 kcal/mol (25731.2905 without restraints) Performing minimization step: 520. Total energy = 25680.5798 kcal/mol (25672.3360 without restraints) Performing minimization step: 521. Total energy = 25621.9470 kcal/mol (25613.7468 without restraints) Performing minimization step: 522. Total energy = 25563.6765 kcal/mol (25555.5195 without restraints) Performing minimization step: 523. Total energy = 25505.7651 kcal/mol (25497.6509 without restraints) Performing minimization step: 524. Total energy = 25448.2094 kcal/mol (25440.1376 without restraints) Performing minimization step: 525. Total energy = 25391.0064 kcal/mol (25382.9765 without restraints) Performing minimization step: 526. Total energy = 25334.1527 kcal/mol (25326.1645 without restraints) Performing minimization step: 527. Total energy = 25277.6453 kcal/mol (25269.6984 without restraints) Performing minimization step: 528. Total energy = 25221.4810 kcal/mol (25213.5750 without restraints) Performing minimization step: 529. Total energy = 25165.6569 kcal/mol (25157.7915 without restraints) Performing minimization step: 530. Total energy = 25110.1698 kcal/mol (25102.3446 without restraints) Performing minimization step: 531. Total energy = 25055.0168 kcal/mol (25047.2314 without restraints) Performing minimization step: 532. Total energy = 25000.1948 kcal/mol (24992.4489 without restraints) Performing minimization step: 533. Total energy = 24945.7010 kcal/mol (24937.9942 without restraints) Performing minimization step: 534. Total energy = 24891.5324 kcal/mol (24883.8645 without restraints) Performing minimization step: 535. Total energy = 24837.6862 kcal/mol (24830.0567 without restraints) Performing minimization step: 536. Total energy = 24784.1595 kcal/mol (24776.5682 without restraints) Performing minimization step: 537. Total energy = 24730.9494 kcal/mol (24723.3957 without restraints) Performing minimization step: 538. Total energy = 24678.0532 kcal/mol (24670.5371 without restraints) Performing minimization step: 539. Total energy = 24625.4682 kcal/mol (24617.9893 without restraints) Performing minimization step: 540. Total energy = 24573.1914 kcal/mol (24565.7494 without restraints) Performing minimization step: 541. Total energy = 24521.2208 kcal/mol (24513.8153 without restraints) Performing minimization step: 542. Total energy = 24469.5531 kcal/mol (24462.1838 without restraints) Performing minimization step: 543. Total energy = 24418.1858 kcal/mol (24410.8523 without restraints) Performing minimization step: 544. Total energy = 24367.1163 kcal/mol (24359.8184 without restraints) Performing minimization step: 545. Total energy = 24316.3420 kcal/mol (24309.0794 without restraints) Performing minimization step: 546. Total energy = 24265.8603 kcal/mol (24258.6327 without restraints) Performing minimization step: 547. Total energy = 24215.6688 kcal/mol (24208.4758 without restraints) Performing minimization step: 548. Total energy = 24165.7648 kcal/mol (24158.6063 without restraints) Performing minimization step: 549. Total energy = 24116.1461 kcal/mol (24109.0218 without restraints) Performing minimization step: 550. Total energy = 24066.8102 kcal/mol (24059.7195 without restraints) Performing minimization step: 551. Total energy = 24017.7543 kcal/mol (24010.6972 without restraints) Performing minimization step: 552. Total energy = 23968.9763 kcal/mol (23961.9523 without restraints) Performing minimization step: 553. Total energy = 23920.4737 kcal/mol (23913.4827 without restraints) Performing minimization step: 554. Total energy = 23872.2440 kcal/mol (23865.2856 without restraints) Performing minimization step: 555. Total energy = 23824.2852 kcal/mol (23817.3593 without restraints) Performing minimization step: 556. Total energy = 23776.5949 kcal/mol (23769.7011 without restraints) Performing minimization step: 557. Total energy = 23729.1707 kcal/mol (23722.3089 without restraints) Performing minimization step: 558. Total energy = 23682.0105 kcal/mol (23675.1802 without restraints) Performing minimization step: 559. Total energy = 23635.1119 kcal/mol (23628.3129 without restraints) Performing minimization step: 560. Total energy = 23588.4728 kcal/mol (23581.7049 without restraints) Performing minimization step: 561. Total energy = 23542.0909 kcal/mol (23535.3538 without restraints) Performing minimization step: 562. Total energy = 23495.9641 kcal/mol (23489.2576 without restraints) Performing minimization step: 563. Total energy = 23450.0902 kcal/mol (23443.4140 without restraints) Performing minimization step: 564. Total energy = 23404.4670 kcal/mol (23397.8208 without restraints) Performing minimization step: 565. Total energy = 23359.0926 kcal/mol (23352.4762 without restraints) Performing minimization step: 566. Total energy = 23313.9647 kcal/mol (23307.3779 without restraints) Performing minimization step: 567. Total energy = 23269.0815 kcal/mol (23262.5239 without restraints) Performing minimization step: 568. Total energy = 23224.4407 kcal/mol (23217.9122 without restraints) Performing minimization step: 569. Total energy = 23180.0403 kcal/mol (23173.5407 without restraints) Performing minimization step: 570. Total energy = 23135.8784 kcal/mol (23129.4074 without restraints) Performing minimization step: 571. Total energy = 23091.9530 kcal/mol (23085.5103 without restraints) Performing minimization step: 572. Total energy = 23048.2620 kcal/mol (23041.8475 without restraints) Performing minimization step: 573. Total energy = 23004.8036 kcal/mol (22998.4170 without restraints) Performing minimization step: 574. Total energy = 22961.5758 kcal/mol (22955.2168 without restraints) Performing minimization step: 575. Total energy = 22918.5767 kcal/mol (22912.2452 without restraints) Performing minimization step: 576. Total energy = 22875.8044 kcal/mol (22869.5001 without restraints) Performing minimization step: 577. Total energy = 22833.2571 kcal/mol (22826.9798 without restraints) Performing minimization step: 578. Total energy = 22790.9332 kcal/mol (22784.6827 without restraints) Performing minimization step: 579. Total energy = 22748.8302 kcal/mol (22742.6063 without restraints) Performing minimization step: 580. Total energy = 22706.9466 kcal/mol (22700.7490 without restraints) Performing minimization step: 581. Total energy = 22665.2806 kcal/mol (22659.1091 without restraints) Performing minimization step: 582. Total energy = 22623.8304 kcal/mol (22617.6849 without restraints) Performing minimization step: 583. Total energy = 22582.5943 kcal/mol (22576.4745 without restraints) Performing minimization step: 584. Total energy = 22541.5706 kcal/mol (22535.4762 without restraints) Performing minimization step: 585. Total energy = 22500.7574 kcal/mol (22494.6883 without restraints) Performing minimization step: 586. Total energy = 22460.1530 kcal/mol (22454.1091 without restraints) Performing minimization step: 587. Total energy = 22419.7560 kcal/mol (22413.7370 without restraints) Performing minimization step: 588. Total energy = 22379.5643 kcal/mol (22373.5700 without restraints) Performing minimization step: 589. Total energy = 22339.5764 kcal/mol (22333.6066 without restraints) Performing minimization step: 590. Total energy = 22299.7906 kcal/mol (22293.8452 without restraints) Performing minimization step: 591. Total energy = 22260.2054 kcal/mol (22254.2840 without restraints) Performing minimization step: 592. Total energy = 22220.8189 kcal/mol (22214.9214 without restraints) Performing minimization step: 593. Total energy = 22181.6297 kcal/mol (22175.7560 without restraints) Performing minimization step: 594. Total energy = 22142.6363 kcal/mol (22136.7862 without restraints) Performing minimization step: 595. Total energy = 22103.8371 kcal/mol (22098.0103 without restraints) Performing minimization step: 596. Total energy = 22065.2303 kcal/mol (22059.4267 without restraints) Performing minimization step: 597. Total energy = 22026.8145 kcal/mol (22021.0338 without restraints) Performing minimization step: 598. Total energy = 21988.5881 kcal/mol (21982.8303 without restraints) Performing minimization step: 599. Total energy = 21950.5498 kcal/mol (21944.8146 without restraints) Performing minimization step: 600. Total energy = 21912.6979 kcal/mol (21906.9852 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 601. Total energy = 21875.0310 kcal/mol (21869.3406 without restraints) Performing minimization step: 602. Total energy = 21837.5475 kcal/mol (21831.8792 without restraints) Performing minimization step: 603. Total energy = 21800.2461 kcal/mol (21794.5997 without restraints) Performing minimization step: 604. Total energy = 21763.1258 kcal/mol (21757.5011 without restraints) Performing minimization step: 605. Total energy = 21726.1842 kcal/mol (21720.5812 without restraints) Performing minimization step: 606. Total energy = 21689.4201 kcal/mol (21683.8385 without restraints) Performing minimization step: 607. Total energy = 21652.8324 kcal/mol (21647.2720 without restraints) Performing minimization step: 608. Total energy = 21616.4195 kcal/mol (21610.8802 without restraints) Performing minimization step: 609. Total energy = 21580.1801 kcal/mol (21574.6617 without restraints) Performing minimization step: 610. Total energy = 21544.1128 kcal/mol (21538.6152 without restraints) Performing minimization step: 611. Total energy = 21508.2163 kcal/mol (21502.7393 without restraints) Performing minimization step: 612. Total energy = 21472.4892 kcal/mol (21467.0327 without restraints) Performing minimization step: 613. Total energy = 21436.9302 kcal/mol (21431.4940 without restraints) Performing minimization step: 614. Total energy = 21401.5380 kcal/mol (21396.1219 without restraints) Performing minimization step: 615. Total energy = 21366.3112 kcal/mol (21360.9151 without restraints) Performing minimization step: 616. Total energy = 21331.2486 kcal/mol (21325.8723 without restraints) Performing minimization step: 617. Total energy = 21296.3489 kcal/mol (21290.9922 without restraints) Performing minimization step: 618. Total energy = 21261.6107 kcal/mol (21256.2735 without restraints) Performing minimization step: 619. Total energy = 21227.0329 kcal/mol (21221.7151 without restraints) Performing minimization step: 620. Total energy = 21192.6141 kcal/mol (21187.3155 without restraints) Performing minimization step: 621. Total energy = 21158.3532 kcal/mol (21153.0736 without restraints) Performing minimization step: 622. Total energy = 21124.2488 kcal/mol (21118.9882 without restraints) Performing minimization step: 623. Total energy = 21090.3005 kcal/mol (21085.0587 without restraints) Performing minimization step: 624. Total energy = 21056.5057 kcal/mol (21051.2825 without restraints) Performing minimization step: 625. Total energy = 21022.8639 kcal/mol (21017.6592 without restraints) Performing minimization step: 626. Total energy = 20989.3739 kcal/mol (20984.1876 without restraints) Performing minimization step: 627. Total energy = 20956.0345 kcal/mol (20950.8664 without restraints) Performing minimization step: 628. Total energy = 20922.8446 kcal/mol (20917.6945 without restraints) Performing minimization step: 629. Total energy = 20889.8029 kcal/mol (20884.6707 without restraints) Performing minimization step: 630. Total energy = 20856.9084 kcal/mol (20851.7940 without restraints) Performing minimization step: 631. Total energy = 20824.1598 kcal/mol (20819.0632 without restraints) Performing minimization step: 632. Total energy = 20791.5562 kcal/mol (20786.4771 without restraints) Performing minimization step: 633. Total energy = 20759.0964 kcal/mol (20754.0346 without restraints) Performing minimization step: 634. Total energy = 20726.7792 kcal/mol (20721.7347 without restraints) Performing minimization step: 635. Total energy = 20694.6036 kcal/mol (20689.5763 without restraints) Performing minimization step: 636. Total energy = 20662.5683 kcal/mol (20657.5579 without restraints) Performing minimization step: 637. Total energy = 20630.6725 kcal/mol (20625.6791 without restraints) Performing minimization step: 638. Total energy = 20598.9151 kcal/mol (20593.9384 without restraints) Performing minimization step: 639. Total energy = 20567.2950 kcal/mol (20562.3350 without restraints) Performing minimization step: 640. Total energy = 20535.8113 kcal/mol (20530.8680 without restraints) Performing minimization step: 641. Total energy = 20504.4629 kcal/mol (20499.5357 without restraints) Performing minimization step: 642. Total energy = 20473.2483 kcal/mol (20468.3374 without restraints) Performing minimization step: 643. Total energy = 20442.1669 kcal/mol (20437.2722 without restraints) Performing minimization step: 644. Total energy = 20411.2177 kcal/mol (20406.3389 without restraints) Performing minimization step: 645. Total energy = 20380.3996 kcal/mol (20375.5367 without restraints) Performing minimization step: 646. Total energy = 20349.7116 kcal/mol (20344.8645 without restraints) Performing minimization step: 647. Total energy = 20319.1528 kcal/mol (20314.3213 without restraints) Performing minimization step: 648. Total energy = 20288.7221 kcal/mol (20283.9062 without restraints) Performing minimization step: 649. Total energy = 20258.4187 kcal/mol (20253.6182 without restraints) Performing minimization step: 650. Total energy = 20228.2414 kcal/mol (20223.4563 without restraints) Performing minimization step: 651. Total energy = 20198.1895 kcal/mol (20193.4196 without restraints) Performing minimization step: 652. Total energy = 20168.2620 kcal/mol (20163.5071 without restraints) Performing minimization step: 653. Total energy = 20138.4578 kcal/mol (20133.7179 without restraints) Performing minimization step: 654. Total energy = 20108.7761 kcal/mol (20104.0511 without restraints) Performing minimization step: 655. Total energy = 20079.2159 kcal/mol (20074.5057 without restraints) Performing minimization step: 656. Total energy = 20049.7765 kcal/mol (20045.0809 without restraints) Performing minimization step: 657. Total energy = 20020.4568 kcal/mol (20015.7758 without restraints) Performing minimization step: 658. Total energy = 19991.2562 kcal/mol (19986.5896 without restraints) Performing minimization step: 659. Total energy = 19962.1733 kcal/mol (19957.5211 without restraints) Performing minimization step: 660. Total energy = 19933.2076 kcal/mol (19928.5696 without restraints) Performing minimization step: 661. Total energy = 19904.3580 kcal/mol (19899.7341 without restraints) Performing minimization step: 662. Total energy = 19875.6238 kcal/mol (19871.0139 without restraints) Performing minimization step: 663. Total energy = 19847.0041 kcal/mol (19842.4081 without restraints) Performing minimization step: 664. Total energy = 19818.4979 kcal/mol (19813.9157 without restraints) Performing minimization step: 665. Total energy = 19790.1046 kcal/mol (19785.5362 without restraints) Performing minimization step: 666. Total energy = 19761.8234 kcal/mol (19757.2685 without restraints) Performing minimization step: 667. Total energy = 19733.6532 kcal/mol (19729.1119 without restraints) Performing minimization step: 668. Total energy = 19705.5934 kcal/mol (19701.0655 without restraints) Performing minimization step: 669. Total energy = 19677.6431 kcal/mol (19673.1285 without restraints) Performing minimization step: 670. Total energy = 19649.8015 kcal/mol (19645.3001 without restraints) Performing minimization step: 671. Total energy = 19622.0677 kcal/mol (19617.5795 without restraints) Performing minimization step: 672. Total energy = 19594.4413 kcal/mol (19589.9661 without restraints) Performing minimization step: 673. Total energy = 19566.9210 kcal/mol (19562.4587 without restraints) Performing minimization step: 674. Total energy = 19539.5062 kcal/mol (19535.0568 without restraints) Performing minimization step: 675. Total energy = 19512.1962 kcal/mol (19507.7596 without restraints) Performing minimization step: 676. Total energy = 19484.9902 kcal/mol (19480.5662 without restraints) Performing minimization step: 677. Total energy = 19457.8874 kcal/mol (19453.4760 without restraints) Performing minimization step: 678. Total energy = 19430.8871 kcal/mol (19426.4882 without restraints) Performing minimization step: 679. Total energy = 19403.9886 kcal/mol (19399.6020 without restraints) Performing minimization step: 680. Total energy = 19377.1910 kcal/mol (19372.8168 without restraints) Performing minimization step: 681. Total energy = 19350.4937 kcal/mol (19346.1317 without restraints) Performing minimization step: 682. Total energy = 19323.8960 kcal/mol (19319.5460 without restraints) Performing minimization step: 683. Total energy = 19297.3972 kcal/mol (19293.0593 without restraints) Performing minimization step: 684. Total energy = 19270.9963 kcal/mol (19266.6704 without restraints) Performing minimization step: 685. Total energy = 19244.6929 kcal/mol (19240.3789 without restraints) Performing minimization step: 686. Total energy = 19218.4862 kcal/mol (19214.1839 without restraints) Performing minimization step: 687. Total energy = 19192.3753 kcal/mol (19188.0848 without restraints) Performing minimization step: 688. Total energy = 19166.3599 kcal/mol (19162.0810 without restraints) Performing minimization step: 689. Total energy = 19140.4390 kcal/mol (19136.1716 without restraints) Performing minimization step: 690. Total energy = 19114.6120 kcal/mol (19110.3560 without restraints) Performing minimization step: 691. Total energy = 19088.8782 kcal/mol (19084.6336 without restraints) Performing minimization step: 692. Total energy = 19063.2370 kcal/mol (19059.0037 without restraints) Performing minimization step: 693. Total energy = 19037.6879 kcal/mol (19033.4659 without restraints) Performing minimization step: 694. Total energy = 19012.2299 kcal/mol (19008.0190 without restraints) Performing minimization step: 695. Total energy = 18986.8625 kcal/mol (18982.6627 without restraints) Performing minimization step: 696. Total energy = 18961.5851 kcal/mol (18957.3962 without restraints) Performing minimization step: 697. Total energy = 18936.3970 kcal/mol (18932.2190 without restraints) Performing minimization step: 698. Total energy = 18911.2975 kcal/mol (18907.1304 without restraints) Performing minimization step: 699. Total energy = 18886.2861 kcal/mol (18882.1298 without restraints) Performing minimization step: 700. Total energy = 18861.3622 kcal/mol (18857.2165 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 701. Total energy = 18836.5250 kcal/mol (18832.3900 without restraints) Performing minimization step: 702. Total energy = 18811.7741 kcal/mol (18807.6495 without restraints) Performing minimization step: 703. Total energy = 18787.1087 kcal/mol (18782.9946 without restraints) Performing minimization step: 704. Total energy = 18762.5283 kcal/mol (18758.4246 without restraints) Performing minimization step: 705. Total energy = 18738.0323 kcal/mol (18733.9390 without restraints) Performing minimization step: 706. Total energy = 18713.6202 kcal/mol (18709.5372 without restraints) Performing minimization step: 707. Total energy = 18689.2913 kcal/mol (18685.2183 without restraints) Performing minimization step: 708. Total energy = 18665.0449 kcal/mol (18660.9820 without restraints) Performing minimization step: 709. Total energy = 18640.8806 kcal/mol (18636.8277 without restraints) Performing minimization step: 710. Total energy = 18616.7977 kcal/mol (18612.7548 without restraints) Performing minimization step: 711. Total energy = 18592.7956 kcal/mol (18588.7626 without restraints) Performing minimization step: 712. Total energy = 18568.8739 kcal/mol (18564.8508 without restraints) Performing minimization step: 713. Total energy = 18545.0320 kcal/mol (18541.0186 without restraints) Performing minimization step: 714. Total energy = 18521.2693 kcal/mol (18517.2656 without restraints) Performing minimization step: 715. Total energy = 18497.5853 kcal/mol (18493.5912 without restraints) Performing minimization step: 716. Total energy = 18473.9794 kcal/mol (18469.9949 without restraints) Performing minimization step: 717. Total energy = 18450.4510 kcal/mol (18446.4760 without restraints) Performing minimization step: 718. Total energy = 18426.9997 kcal/mol (18423.0341 without restraints) Performing minimization step: 719. Total energy = 18403.6249 kcal/mol (18399.6687 without restraints) Performing minimization step: 720. Total energy = 18380.3261 kcal/mol (18376.3792 without restraints) Performing minimization step: 721. Total energy = 18357.1027 kcal/mol (18353.1650 without restraints) Performing minimization step: 722. Total energy = 18333.9543 kcal/mol (18330.0258 without restraints) Performing minimization step: 723. Total energy = 18310.8803 kcal/mol (18306.9609 without restraints) Performing minimization step: 724. Total energy = 18287.8802 kcal/mol (18283.9699 without restraints) Performing minimization step: 725. Total energy = 18264.9535 kcal/mol (18261.0522 without restraints) Performing minimization step: 726. Total energy = 18242.0998 kcal/mol (18238.2074 without restraints) Performing minimization step: 727. Total energy = 18219.3184 kcal/mol (18215.4349 without restraints) Performing minimization step: 728. Total energy = 18196.6090 kcal/mol (18192.7343 without restraints) Performing minimization step: 729. Total energy = 18173.9708 kcal/mol (18170.1048 without restraints) Performing minimization step: 730. Total energy = 18151.4037 kcal/mol (18147.5464 without restraints) Performing minimization step: 731. Total energy = 18128.9071 kcal/mol (18125.0584 without restraints) Performing minimization step: 732. Total energy = 18106.4804 kcal/mol (18102.6403 without restraints) Performing minimization step: 733. Total energy = 18084.1233 kcal/mol (18080.2917 without restraints) Performing minimization step: 734. Total energy = 18061.8351 kcal/mol (18058.0121 without restraints) Performing minimization step: 735. Total energy = 18039.6156 kcal/mol (18035.8009 without restraints) Performing minimization step: 736. Total energy = 18017.4643 kcal/mol (18013.6581 without restraints) Performing minimization step: 737. Total energy = 17995.3806 kcal/mol (17991.5826 without restraints) Performing minimization step: 738. Total energy = 17973.3641 kcal/mol (17969.5743 without restraints) Performing minimization step: 739. Total energy = 17951.4145 kcal/mol (17947.6329 without restraints) Performing minimization step: 740. Total energy = 17929.5310 kcal/mol (17925.7576 without restraints) Performing minimization step: 741. Total energy = 17907.7134 kcal/mol (17903.9480 without restraints) Performing minimization step: 742. Total energy = 17885.9616 kcal/mol (17882.2043 without restraints) Performing minimization step: 743. Total energy = 17864.2747 kcal/mol (17860.5253 without restraints) Performing minimization step: 744. Total energy = 17842.6520 kcal/mol (17838.9106 without restraints) Performing minimization step: 745. Total energy = 17821.0935 kcal/mol (17817.3600 without restraints) Performing minimization step: 746. Total energy = 17799.5987 kcal/mol (17795.8730 without restraints) Performing minimization step: 747. Total energy = 17778.1672 kcal/mol (17774.4492 without restraints) Performing minimization step: 748. Total energy = 17756.7985 kcal/mol (17753.0883 without restraints) Performing minimization step: 749. Total energy = 17735.4923 kcal/mol (17731.7898 without restraints) Performing minimization step: 750. Total energy = 17714.2482 kcal/mol (17710.5532 without restraints) Performing minimization step: 751. Total energy = 17693.0657 kcal/mol (17689.3783 without restraints) Performing minimization step: 752. Total energy = 17671.9444 kcal/mol (17668.2646 without restraints) Performing minimization step: 753. Total energy = 17650.8843 kcal/mol (17647.2120 without restraints) Performing minimization step: 754. Total energy = 17629.8843 kcal/mol (17626.2194 without restraints) Performing minimization step: 755. Total energy = 17608.9443 kcal/mol (17605.2868 without restraints) Performing minimization step: 756. Total energy = 17588.0640 kcal/mol (17584.4138 without restraints) Performing minimization step: 757. Total energy = 17567.2430 kcal/mol (17563.6000 without restraints) Performing minimization step: 758. Total energy = 17546.4808 kcal/mol (17542.8451 without restraints) Performing minimization step: 759. Total energy = 17525.7772 kcal/mol (17522.1487 without restraints) Performing minimization step: 760. Total energy = 17505.1318 kcal/mol (17501.5104 without restraints) Performing minimization step: 761. Total energy = 17484.5440 kcal/mol (17480.9298 without restraints) Performing minimization step: 762. Total energy = 17464.0137 kcal/mol (17460.4065 without restraints) Performing minimization step: 763. Total energy = 17443.5404 kcal/mol (17439.9402 without restraints) Performing minimization step: 764. Total energy = 17423.1237 kcal/mol (17419.5304 without restraints) Performing minimization step: 765. Total energy = 17402.7633 kcal/mol (17399.1770 without restraints) Performing minimization step: 766. Total energy = 17382.4589 kcal/mol (17378.8794 without restraints) Performing minimization step: 767. Total energy = 17362.2099 kcal/mol (17358.6373 without restraints) Performing minimization step: 768. Total energy = 17342.0163 kcal/mol (17338.4504 without restraints) Performing minimization step: 769. Total energy = 17321.8775 kcal/mol (17318.3184 without restraints) Performing minimization step: 770. Total energy = 17301.7932 kcal/mol (17298.2409 without restraints) Performing minimization step: 771. Total energy = 17281.7632 kcal/mol (17278.2175 without restraints) Performing minimization step: 772. Total energy = 17261.7870 kcal/mol (17258.2479 without restraints) Performing minimization step: 773. Total energy = 17241.8642 kcal/mol (17238.3318 without restraints) Performing minimization step: 774. Total energy = 17221.9947 kcal/mol (17218.4688 without restraints) Performing minimization step: 775. Total energy = 17202.1780 kcal/mol (17198.6586 without restraints) Performing minimization step: 776. Total energy = 17182.4138 kcal/mol (17178.9008 without restraints) Performing minimization step: 777. Total energy = 17162.7017 kcal/mol (17159.1952 without restraints) Performing minimization step: 778. Total energy = 17143.0416 kcal/mol (17139.5414 without restraints) Performing minimization step: 779. Total energy = 17123.4329 kcal/mol (17119.9391 without restraints) Performing minimization step: 780. Total energy = 17103.8755 kcal/mol (17100.3880 without restraints) Performing minimization step: 781. Total energy = 17084.3690 kcal/mol (17080.8877 without restraints) Performing minimization step: 782. Total energy = 17064.9130 kcal/mol (17061.4380 without restraints) Performing minimization step: 783. Total energy = 17045.5074 kcal/mol (17042.0385 without restraints) Performing minimization step: 784. Total energy = 17026.1516 kcal/mol (17022.6890 without restraints) Performing minimization step: 785. Total energy = 17006.8456 kcal/mol (17003.3890 without restraints) Performing minimization step: 786. Total energy = 16987.5889 kcal/mol (16984.1384 without restraints) Performing minimization step: 787. Total energy = 16968.3812 kcal/mol (16964.9368 without restraints) Performing minimization step: 788. Total energy = 16949.2224 kcal/mol (16945.7839 without restraints) Performing minimization step: 789. Total energy = 16930.1119 kcal/mol (16926.6795 without restraints) Performing minimization step: 790. Total energy = 16911.0496 kcal/mol (16907.6231 without restraints) Performing minimization step: 791. Total energy = 16892.0355 kcal/mol (16888.6149 without restraints) Performing minimization step: 792. Total energy = 16873.0687 kcal/mol (16869.6539 without restraints) Performing minimization step: 793. Total energy = 16854.1492 kcal/mol (16850.7402 without restraints) Performing minimization step: 794. Total energy = 16835.2767 kcal/mol (16831.8735 without restraints) Performing minimization step: 795. Total energy = 16816.4511 kcal/mol (16813.0537 without restraints) Performing minimization step: 796. Total energy = 16797.6718 kcal/mol (16794.2801 without restraints) Performing minimization step: 797. Total energy = 16778.9386 kcal/mol (16775.5527 without restraints) Performing minimization step: 798. Total energy = 16760.2514 kcal/mol (16756.8711 without restraints) Performing minimization step: 799. Total energy = 16741.6098 kcal/mol (16738.2351 without restraints) Performing minimization step: 800. Total energy = 16723.0136 kcal/mol (16719.6445 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 801. Total energy = 16704.4624 kcal/mol (16701.0989 without restraints) Performing minimization step: 802. Total energy = 16685.9561 kcal/mol (16682.5980 without restraints) Performing minimization step: 803. Total energy = 16667.4943 kcal/mol (16664.1418 without restraints) Performing minimization step: 804. Total energy = 16649.0768 kcal/mol (16645.7298 without restraints) Performing minimization step: 805. Total energy = 16630.7034 kcal/mol (16627.3618 without restraints) Performing minimization step: 806. Total energy = 16612.3738 kcal/mol (16609.0375 without restraints) Performing minimization step: 807. Total energy = 16594.0876 kcal/mol (16590.7568 without restraints) Performing minimization step: 808. Total energy = 16575.8448 kcal/mol (16572.5193 without restraints) Performing minimization step: 809. Total energy = 16557.6450 kcal/mol (16554.3247 without restraints) Performing minimization step: 810. Total energy = 16539.4879 kcal/mol (16536.1730 without restraints) Performing minimization step: 811. Total energy = 16521.3734 kcal/mol (16518.0637 without restraints) Performing minimization step: 812. Total energy = 16503.3016 kcal/mol (16499.9971 without restraints) Performing minimization step: 813. Total energy = 16485.2715 kcal/mol (16481.9723 without restraints) Performing minimization step: 814. Total energy = 16467.2833 kcal/mol (16463.9891 without restraints) Performing minimization step: 815. Total energy = 16449.3364 kcal/mol (16446.0474 without restraints) Performing minimization step: 816. Total energy = 16431.4309 kcal/mol (16428.1470 without restraints) Performing minimization step: 817. Total energy = 16413.5665 kcal/mol (16410.2877 without restraints) Performing minimization step: 818. Total energy = 16395.7430 kcal/mol (16392.4691 without restraints) Performing minimization step: 819. Total energy = 16377.9601 kcal/mol (16374.6913 without restraints) Performing minimization step: 820. Total energy = 16360.2176 kcal/mol (16356.9537 without restraints) Performing minimization step: 821. Total energy = 16342.5152 kcal/mol (16339.2563 without restraints) Performing minimization step: 822. Total energy = 16324.8528 kcal/mol (16321.5989 without restraints) Performing minimization step: 823. Total energy = 16307.2301 kcal/mol (16303.9811 without restraints) Performing minimization step: 824. Total energy = 16289.6470 kcal/mol (16286.4028 without restraints) Performing minimization step: 825. Total energy = 16272.1031 kcal/mol (16268.8637 without restraints) Performing minimization step: 826. Total energy = 16254.5982 kcal/mol (16251.3637 without restraints) Performing minimization step: 827. Total energy = 16237.1322 kcal/mol (16233.9025 without restraints) Performing minimization step: 828. Total energy = 16219.7049 kcal/mol (16216.4799 without restraints) Performing minimization step: 829. Total energy = 16202.3159 kcal/mol (16199.0957 without restraints) Performing minimization step: 830. Total energy = 16184.9650 kcal/mol (16181.7495 without restraints) Performing minimization step: 831. Total energy = 16167.6522 kcal/mol (16164.4414 without restraints) Performing minimization step: 832. Total energy = 16150.3773 kcal/mol (16147.1711 without restraints) Performing minimization step: 833. Total energy = 16133.1397 kcal/mol (16129.9382 without restraints) Performing minimization step: 834. Total energy = 16115.9398 kcal/mol (16112.7428 without restraints) Performing minimization step: 835. Total energy = 16098.7770 kcal/mol (16095.5846 without restraints) Performing minimization step: 836. Total energy = 16081.6511 kcal/mol (16078.4633 without restraints) Performing minimization step: 837. Total energy = 16064.5620 kcal/mol (16061.3788 without restraints) Performing minimization step: 838. Total energy = 16047.5096 kcal/mol (16044.3308 without restraints) Performing minimization step: 839. Total energy = 16030.4935 kcal/mol (16027.3192 without restraints) Performing minimization step: 840. Total energy = 16013.5136 kcal/mol (16010.3438 without restraints) Performing minimization step: 841. Total energy = 15996.5697 kcal/mol (15993.4044 without restraints) Performing minimization step: 842. Total energy = 15979.6616 kcal/mol (15976.5007 without restraints) Performing minimization step: 843. Total energy = 15962.7890 kcal/mol (15959.6322 without restraints) Performing minimization step: 844. Total energy = 15945.9517 kcal/mol (15942.7995 without restraints) Performing minimization step: 845. Total energy = 15929.1499 kcal/mol (15926.0021 without restraints) Performing minimization step: 846. Total energy = 15912.3831 kcal/mol (15909.2396 without restraints) Performing minimization step: 847. Total energy = 15895.6512 kcal/mol (15892.5120 without restraints) Performing minimization step: 848. Total energy = 15878.9540 kcal/mol (15875.8191 without restraints) Performing minimization step: 849. Total energy = 15862.2913 kcal/mol (15859.1606 without restraints) Performing minimization step: 850. Total energy = 15845.6629 kcal/mol (15842.5365 without restraints) Performing minimization step: 851. Total energy = 15829.0687 kcal/mol (15825.9465 without restraints) Performing minimization step: 852. Total energy = 15812.5085 kcal/mol (15809.3904 without restraints) Performing minimization step: 853. Total energy = 15795.9820 kcal/mol (15792.8682 without restraints) Performing minimization step: 854. Total energy = 15779.4892 kcal/mol (15776.3795 without restraints) Performing minimization step: 855. Total energy = 15763.0299 kcal/mol (15759.9243 without restraints) Performing minimization step: 856. Total energy = 15746.6037 kcal/mol (15743.5022 without restraints) Performing minimization step: 857. Total energy = 15730.2108 kcal/mol (15727.1134 without restraints) Performing minimization step: 858. Total energy = 15713.8507 kcal/mol (15710.7574 without restraints) Performing minimization step: 859. Total energy = 15697.5235 kcal/mol (15694.4342 without restraints) Performing minimization step: 860. Total energy = 15681.2289 kcal/mol (15678.1436 without restraints) Performing minimization step: 861. Total energy = 15664.9667 kcal/mol (15661.8854 without restraints) Performing minimization step: 862. Total energy = 15648.7368 kcal/mol (15645.6595 without restraints) Performing minimization step: 863. Total energy = 15632.5390 kcal/mol (15629.4656 without restraints) Performing minimization step: 864. Total energy = 15616.3732 kcal/mol (15613.3038 without restraints) Performing minimization step: 865. Total energy = 15600.2392 kcal/mol (15597.1737 without restraints) Performing minimization step: 866. Total energy = 15584.1368 kcal/mol (15581.0753 without restraints) Performing minimization step: 867. Total energy = 15568.0660 kcal/mol (15565.0083 without restraints) Performing minimization step: 868. Total energy = 15552.0264 kcal/mol (15548.9726 without restraints) Performing minimization step: 869. Total energy = 15536.0183 kcal/mol (15532.9683 without restraints) Performing minimization step: 870. Total energy = 15520.0410 kcal/mol (15516.9948 without restraints) Performing minimization step: 871. Total energy = 15504.0947 kcal/mol (15501.0524 without restraints) Performing minimization step: 872. Total energy = 15488.1790 kcal/mol (15485.1404 without restraints) Performing minimization step: 873. Total energy = 15472.2938 kcal/mol (15469.2590 without restraints) Performing minimization step: 874. Total energy = 15456.4384 kcal/mol (15453.4073 without restraints) Performing minimization step: 875. Total energy = 15440.6139 kcal/mol (15437.5866 without restraints) Performing minimization step: 876. Total energy = 15424.8196 kcal/mol (15421.7960 without restraints) Performing minimization step: 877. Total energy = 15409.0553 kcal/mol (15406.0354 without restraints) Performing minimization step: 878. Total energy = 15393.3210 kcal/mol (15390.3048 without restraints) Performing minimization step: 879. Total energy = 15377.6163 kcal/mol (15374.6037 without restraints) Performing minimization step: 880. Total energy = 15361.9411 kcal/mol (15358.9321 without restraints) Performing minimization step: 881. Total energy = 15346.2953 kcal/mol (15343.2900 without restraints) Performing minimization step: 882. Total energy = 15330.6789 kcal/mol (15327.6772 without restraints) Performing minimization step: 883. Total energy = 15315.0914 kcal/mol (15312.0932 without restraints) Performing minimization step: 884. Total energy = 15299.5330 kcal/mol (15296.5385 without restraints) Performing minimization step: 885. Total energy = 15284.0036 kcal/mol (15281.0126 without restraints) Performing minimization step: 886. Total energy = 15268.5029 kcal/mol (15265.5154 without restraints) Performing minimization step: 887. Total energy = 15253.0308 kcal/mol (15250.0468 without restraints) Performing minimization step: 888. Total energy = 15237.5872 kcal/mol (15234.6067 without restraints) Performing minimization step: 889. Total energy = 15222.1719 kcal/mol (15219.1950 without restraints) Performing minimization step: 890. Total energy = 15206.7848 kcal/mol (15203.8114 without restraints) Performing minimization step: 891. Total energy = 15191.4259 kcal/mol (15188.4558 without restraints) Performing minimization step: 892. Total energy = 15176.0948 kcal/mol (15173.1283 without restraints) Performing minimization step: 893. Total energy = 15160.7917 kcal/mol (15157.8285 without restraints) Performing minimization step: 894. Total energy = 15145.5162 kcal/mol (15142.5564 without restraints) Performing minimization step: 895. Total energy = 15130.2682 kcal/mol (15127.3119 without restraints) Performing minimization step: 896. Total energy = 15115.0477 kcal/mol (15112.0948 without restraints) Performing minimization step: 897. Total energy = 15099.8546 kcal/mol (15096.9050 without restraints) Performing minimization step: 898. Total energy = 15084.6889 kcal/mol (15081.7427 without restraints) Performing minimization step: 899. Total energy = 15069.5501 kcal/mol (15066.6071 without restraints) Performing minimization step: 900. Total energy = 15054.4382 kcal/mol (15051.4986 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 901. Total energy = 15039.3530 kcal/mol (15036.4167 without restraints) Performing minimization step: 902. Total energy = 15024.2947 kcal/mol (15021.3616 without restraints) Performing minimization step: 903. Total energy = 15009.2628 kcal/mol (15006.3330 without restraints) Performing minimization step: 904. Total energy = 14994.2575 kcal/mol (14991.3310 without restraints) Performing minimization step: 905. Total energy = 14979.2787 kcal/mol (14976.3554 without restraints) Performing minimization step: 906. Total energy = 14964.3261 kcal/mol (14961.4061 without restraints) Performing minimization step: 907. Total energy = 14949.3997 kcal/mol (14946.4828 without restraints) Performing minimization step: 908. Total energy = 14934.4995 kcal/mol (14931.5858 without restraints) Performing minimization step: 909. Total energy = 14919.6250 kcal/mol (14916.7145 without restraints) Performing minimization step: 910. Total energy = 14904.7763 kcal/mol (14901.8690 without restraints) Performing minimization step: 911. Total energy = 14889.9533 kcal/mol (14887.0492 without restraints) Performing minimization step: 912. Total energy = 14875.1559 kcal/mol (14872.2549 without restraints) Performing minimization step: 913. Total energy = 14860.3840 kcal/mol (14857.4862 without restraints) Performing minimization step: 914. Total energy = 14845.6374 kcal/mol (14842.7427 without restraints) Performing minimization step: 915. Total energy = 14830.9161 kcal/mol (14828.0245 without restraints) Performing minimization step: 916. Total energy = 14816.2200 kcal/mol (14813.3314 without restraints) Performing minimization step: 917. Total energy = 14801.5489 kcal/mol (14798.6634 without restraints) Performing minimization step: 918. Total energy = 14786.9027 kcal/mol (14784.0203 without restraints) Performing minimization step: 919. Total energy = 14772.2814 kcal/mol (14769.4020 without restraints) Performing minimization step: 920. Total energy = 14757.6848 kcal/mol (14754.8085 without restraints) Performing minimization step: 921. Total energy = 14743.1128 kcal/mol (14740.2395 without restraints) Performing minimization step: 922. Total energy = 14728.5654 kcal/mol (14725.6951 without restraints) Performing minimization step: 923. Total energy = 14714.0424 kcal/mol (14711.1752 without restraints) Performing minimization step: 924. Total energy = 14699.5438 kcal/mol (14696.6795 without restraints) Performing minimization step: 925. Total energy = 14685.0693 kcal/mol (14682.2080 without restraints) Performing minimization step: 926. Total energy = 14670.6190 kcal/mol (14667.7606 without restraints) Performing minimization step: 927. Total energy = 14656.1931 kcal/mol (14653.3376 without restraints) Performing minimization step: 928. Total energy = 14641.7907 kcal/mol (14638.9382 without restraints) Performing minimization step: 929. Total energy = 14627.4122 kcal/mol (14624.5626 without restraints) Performing minimization step: 930. Total energy = 14613.0574 kcal/mol (14610.2108 without restraints) Performing minimization step: 931. Total energy = 14598.7263 kcal/mol (14595.8825 without restraints) Performing minimization step: 932. Total energy = 14584.4187 kcal/mol (14581.5778 without restraints) Performing minimization step: 933. Total energy = 14570.1346 kcal/mol (14567.2966 without restraints) Performing minimization step: 934. Total energy = 14555.8735 kcal/mol (14553.0384 without restraints) Performing minimization step: 935. Total energy = 14541.6362 kcal/mol (14538.8041 without restraints) Performing minimization step: 936. Total energy = 14527.4221 kcal/mol (14524.5927 without restraints) Performing minimization step: 937. Total energy = 14513.2309 kcal/mol (14510.4043 without restraints) Performing minimization step: 938. Total energy = 14499.0626 kcal/mol (14496.2388 without restraints) Performing minimization step: 939. Total energy = 14484.9173 kcal/mol (14482.0963 without restraints) Performing minimization step: 940. Total energy = 14470.7948 kcal/mol (14467.9766 without restraints) Performing minimization step: 941. Total energy = 14456.6950 kcal/mol (14453.8796 without restraints) Performing minimization step: 942. Total energy = 14442.6179 kcal/mol (14439.8052 without restraints) Performing minimization step: 943. Total energy = 14428.5633 kcal/mol (14425.7534 without restraints) Performing minimization step: 944. Total energy = 14414.5312 kcal/mol (14411.7240 without restraints) Performing minimization step: 945. Total energy = 14400.5214 kcal/mol (14397.7170 without restraints) Performing minimization step: 946. Total energy = 14386.5343 kcal/mol (14383.7327 without restraints) Performing minimization step: 947. Total energy = 14372.5692 kcal/mol (14369.7702 without restraints) Performing minimization step: 948. Total energy = 14358.6263 kcal/mol (14355.8300 without restraints) Performing minimization step: 949. Total energy = 14344.7052 kcal/mol (14341.9117 without restraints) Performing minimization step: 950. Total energy = 14330.8062 kcal/mol (14328.0153 without restraints) Performing minimization step: 951. Total energy = 14316.9291 kcal/mol (14314.1409 without restraints) Performing minimization step: 952. Total energy = 14303.0737 kcal/mol (14300.2882 without restraints) Performing minimization step: 953. Total energy = 14289.2398 kcal/mol (14286.4569 without restraints) Performing minimization step: 954. Total energy = 14275.4277 kcal/mol (14272.6475 without restraints) Performing minimization step: 955. Total energy = 14261.6372 kcal/mol (14258.8597 without restraints) Performing minimization step: 956. Total energy = 14247.8682 kcal/mol (14245.0932 without restraints) Performing minimization step: 957. Total energy = 14234.1207 kcal/mol (14231.3484 without restraints) Performing minimization step: 958. Total energy = 14220.3946 kcal/mol (14217.6248 without restraints) Performing minimization step: 959. Total energy = 14206.6895 kcal/mol (14203.9223 without restraints) Performing minimization step: 960. Total energy = 14193.0057 kcal/mol (14190.2411 without restraints) Performing minimization step: 961. Total energy = 14179.3429 kcal/mol (14176.5810 without restraints) Performing minimization step: 962. Total energy = 14165.7012 kcal/mol (14162.9418 without restraints) Performing minimization step: 963. Total energy = 14152.0803 kcal/mol (14149.3234 without restraints) Performing minimization step: 964. Total energy = 14138.4803 kcal/mol (14135.7260 without restraints) Performing minimization step: 965. Total energy = 14124.9011 kcal/mol (14122.1493 without restraints) Performing minimization step: 966. Total energy = 14111.3426 kcal/mol (14108.5933 without restraints) Performing minimization step: 967. Total energy = 14097.8050 kcal/mol (14095.0582 without restraints) Performing minimization step: 968. Total energy = 14084.2877 kcal/mol (14081.5434 without restraints) Performing minimization step: 969. Total energy = 14070.7908 kcal/mol (14068.0491 without restraints) Performing minimization step: 970. Total energy = 14057.3145 kcal/mol (14054.5752 without restraints) Performing minimization step: 971. Total energy = 14043.8584 kcal/mol (14041.1216 without restraints) Performing minimization step: 972. Total energy = 14030.4226 kcal/mol (14027.6883 without restraints) Performing minimization step: 973. Total energy = 14017.0071 kcal/mol (14014.2752 without restraints) Performing minimization step: 974. Total energy = 14003.6117 kcal/mol (14000.8823 without restraints) Performing minimization step: 975. Total energy = 13990.2363 kcal/mol (13987.5094 without restraints) Performing minimization step: 976. Total energy = 13976.8810 kcal/mol (13974.1565 without restraints) Performing minimization step: 977. Total energy = 13963.5456 kcal/mol (13960.8235 without restraints) Performing minimization step: 978. Total energy = 13950.2301 kcal/mol (13947.5103 without restraints) Performing minimization step: 979. Total energy = 13936.9343 kcal/mol (13934.2170 without restraints) Performing minimization step: 980. Total energy = 13923.6583 kcal/mol (13920.9434 without restraints) Performing minimization step: 981. Total energy = 13910.4020 kcal/mol (13907.6894 without restraints) Performing minimization step: 982. Total energy = 13897.1652 kcal/mol (13894.4551 without restraints) Performing minimization step: 983. Total energy = 13883.9480 kcal/mol (13881.2402 without restraints) Performing minimization step: 984. Total energy = 13870.7502 kcal/mol (13868.0448 without restraints) Performing minimization step: 985. Total energy = 13857.5718 kcal/mol (13854.8688 without restraints) Performing minimization step: 986. Total energy = 13844.4130 kcal/mol (13841.7123 without restraints) Performing minimization step: 987. Total energy = 13831.2733 kcal/mol (13828.5749 without restraints) Performing minimization step: 988. Total energy = 13818.1527 kcal/mol (13815.4567 without restraints) Performing minimization step: 989. Total energy = 13805.0516 kcal/mol (13802.3579 without restraints) Performing minimization step: 990. Total energy = 13791.9693 kcal/mol (13789.2779 without restraints) Performing minimization step: 991. Total energy = 13778.9060 kcal/mol (13776.2170 without restraints) Performing minimization step: 992. Total energy = 13765.8615 kcal/mol (13763.1748 without restraints) Performing minimization step: 993. Total energy = 13752.8361 kcal/mol (13750.1517 without restraints) Performing minimization step: 994. Total energy = 13739.8296 kcal/mol (13737.1474 without restraints) Performing minimization step: 995. Total energy = 13726.8418 kcal/mol (13724.1619 without restraints) Performing minimization step: 996. Total energy = 13713.8727 kcal/mol (13711.1951 without restraints) Performing minimization step: 997. Total energy = 13700.9223 kcal/mol (13698.2470 without restraints) Performing minimization step: 998. Total energy = 13687.9905 kcal/mol (13685.3174 without restraints) Performing minimization step: 999. Total energy = 13675.0773 kcal/mol (13672.4064 without restraints) Performing minimization step: 1000. Total energy = 13662.1825 kcal/mol (13659.5139 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 1001. Total energy = 13649.3062 kcal/mol (13646.6398 without restraints) Performing minimization step: 1002. Total energy = 13636.4482 kcal/mol (13633.7840 without restraints) Performing minimization step: 1003. Total energy = 13623.6086 kcal/mol (13620.9466 without restraints) Performing minimization step: 1004. Total energy = 13610.7872 kcal/mol (13608.1274 without restraints) Performing minimization step: 1005. Total energy = 13597.9839 kcal/mol (13595.3264 without restraints) Performing minimization step: 1006. Total energy = 13585.1989 kcal/mol (13582.5435 without restraints) Performing minimization step: 1007. Total energy = 13572.4319 kcal/mol (13569.7788 without restraints) Performing minimization step: 1008. Total energy = 13559.6830 kcal/mol (13557.0320 without restraints) Performing minimization step: 1009. Total energy = 13546.9520 kcal/mol (13544.3032 without restraints) Performing minimization step: 1010. Total energy = 13534.2389 kcal/mol (13531.5923 without restraints) Performing minimization step: 1011. Total energy = 13521.5437 kcal/mol (13518.8993 without restraints) Performing minimization step: 1012. Total energy = 13508.8663 kcal/mol (13506.2240 without restraints) Performing minimization step: 1013. Total energy = 13496.2067 kcal/mol (13493.5666 without restraints) Performing minimization step: 1014. Total energy = 13483.5648 kcal/mol (13480.9268 without restraints) Performing minimization step: 1015. Total energy = 13470.9404 kcal/mol (13468.3044 without restraints) Performing minimization step: 1016. Total energy = 13458.3336 kcal/mol (13455.6999 without restraints) Performing minimization step: 1017. Total energy = 13445.7447 kcal/mol (13443.1131 without restraints) Performing minimization step: 1018. Total energy = 13433.1731 kcal/mol (13430.5435 without restraints) Performing minimization step: 1019. Total energy = 13420.6189 kcal/mol (13417.9915 without restraints) Performing minimization step: 1020. Total energy = 13408.0821 kcal/mol (13405.4568 without restraints) Performing minimization step: 1021. Total energy = 13395.5626 kcal/mol (13392.9394 without restraints) Performing minimization step: 1022. Total energy = 13383.0604 kcal/mol (13380.4393 without restraints) Performing minimization step: 1023. Total energy = 13370.5755 kcal/mol (13367.9565 without restraints) Performing minimization step: 1024. Total energy = 13358.1075 kcal/mol (13355.4905 without restraints) Performing minimization step: 1025. Total energy = 13345.6569 kcal/mol (13343.0420 without restraints) Performing minimization step: 1026. Total energy = 13333.2234 kcal/mol (13330.6105 without restraints) Performing minimization step: 1027. Total energy = 13320.8072 kcal/mol (13318.1963 without restraints) Performing minimization step: 1028. Total energy = 13308.4077 kcal/mol (13305.7989 without restraints) Performing minimization step: 1029. Total energy = 13296.0252 kcal/mol (13293.4185 without restraints) Performing minimization step: 1030. Total energy = 13283.6596 kcal/mol (13281.0549 without restraints) Performing minimization step: 1031. Total energy = 13271.3108 kcal/mol (13268.7082 without restraints) Performing minimization step: 1032. Total energy = 13258.9789 kcal/mol (13256.3782 without restraints) Performing minimization step: 1033. Total energy = 13246.6636 kcal/mol (13244.0650 without restraints) Performing minimization step: 1034. Total energy = 13234.3651 kcal/mol (13231.7685 without restraints) Performing minimization step: 1035. Total energy = 13222.0837 kcal/mol (13219.4891 without restraints) Performing minimization step: 1036. Total energy = 13209.8185 kcal/mol (13207.2259 without restraints) Performing minimization step: 1037. Total energy = 13197.5698 kcal/mol (13194.9792 without restraints) Performing minimization step: 1038. Total energy = 13185.3377 kcal/mol (13182.7491 without restraints) Performing minimization step: 1039. Total energy = 13173.1221 kcal/mol (13170.5355 without restraints) Performing minimization step: 1040. Total energy = 13160.9229 kcal/mol (13158.3382 without restraints) Performing minimization step: 1041. Total energy = 13148.7400 kcal/mol (13146.1573 without restraints) Performing minimization step: 1042. Total energy = 13136.5736 kcal/mol (13133.9928 without restraints) Performing minimization step: 1043. Total energy = 13124.4234 kcal/mol (13121.8446 without restraints) Performing minimization step: 1044. Total energy = 13112.2895 kcal/mol (13109.7126 without restraints) Performing minimization step: 1045. Total energy = 13100.1718 kcal/mol (13097.5969 without restraints) Performing minimization step: 1046. Total energy = 13088.0702 kcal/mol (13085.4972 without restraints) Performing minimization step: 1047. Total energy = 13075.9848 kcal/mol (13073.4137 without restraints) Performing minimization step: 1048. Total energy = 13063.9154 kcal/mol (13061.3463 without restraints) Performing minimization step: 1049. Total energy = 13051.8622 kcal/mol (13049.2950 without restraints) Performing minimization step: 1050. Total energy = 13039.8249 kcal/mol (13037.2596 without restraints) Performing minimization step: 1051. Total energy = 13027.8035 kcal/mol (13025.2402 without restraints) Performing minimization step: 1052. Total energy = 13015.7981 kcal/mol (13013.2366 without restraints) Performing minimization step: 1053. Total energy = 13003.8085 kcal/mol (13001.2490 without restraints) Performing minimization step: 1054. Total energy = 12991.8348 kcal/mol (12989.2772 without restraints) Performing minimization step: 1055. Total energy = 12979.8769 kcal/mol (12977.3212 without restraints) Performing minimization step: 1056. Total energy = 12967.9347 kcal/mol (12965.3808 without restraints) Performing minimization step: 1057. Total energy = 12956.0082 kcal/mol (12953.4562 without restraints) Performing minimization step: 1058. Total energy = 12944.0974 kcal/mol (12941.5473 without restraints) Performing minimization step: 1059. Total energy = 12932.2026 kcal/mol (12929.6543 without restraints) Performing minimization step: 1060. Total energy = 12920.3230 kcal/mol (12917.7766 without restraints) Performing minimization step: 1061. Total energy = 12908.4589 kcal/mol (12905.9144 without restraints) Performing minimization step: 1062. Total energy = 12896.6106 kcal/mol (12894.0679 without restraints) Performing minimization step: 1063. Total energy = 12884.7775 kcal/mol (12882.2366 without restraints) Performing minimization step: 1064. Total energy = 12872.9598 kcal/mol (12870.4208 without restraints) Performing minimization step: 1065. Total energy = 12861.1575 kcal/mol (12858.6204 without restraints) Performing minimization step: 1066. Total energy = 12849.3706 kcal/mol (12846.8353 without restraints) Performing minimization step: 1067. Total energy = 12837.5990 kcal/mol (12835.0655 without restraints) Performing minimization step: 1068. Total energy = 12825.8427 kcal/mol (12823.3110 without restraints) Performing minimization step: 1069. Total energy = 12814.1016 kcal/mol (12811.5718 without restraints) Performing minimization step: 1070. Total energy = 12802.3757 kcal/mol (12799.8477 without restraints) Performing minimization step: 1071. Total energy = 12790.6653 kcal/mol (12788.1390 without restraints) Performing minimization step: 1072. Total energy = 12778.9697 kcal/mol (12776.4452 without restraints) Performing minimization step: 1073. Total energy = 12767.2891 kcal/mol (12764.7665 without restraints) Performing minimization step: 1074. Total energy = 12755.6237 kcal/mol (12753.1028 without restraints) Performing minimization step: 1075. Total energy = 12743.9732 kcal/mol (12741.4542 without restraints) Performing minimization step: 1076. Total energy = 12732.3378 kcal/mol (12729.8205 without restraints) Performing minimization step: 1077. Total energy = 12720.7172 kcal/mol (12718.2018 without restraints) Performing minimization step: 1078. Total energy = 12709.1116 kcal/mol (12706.5979 without restraints) Performing minimization step: 1079. Total energy = 12697.5209 kcal/mol (12695.0089 without restraints) Performing minimization step: 1080. Total energy = 12685.9449 kcal/mol (12683.4348 without restraints) Performing minimization step: 1081. Total energy = 12674.3838 kcal/mol (12671.8754 without restraints) Performing minimization step: 1082. Total energy = 12662.8374 kcal/mol (12660.3308 without restraints) Performing minimization step: 1083. Total energy = 12651.3058 kcal/mol (12648.8009 without restraints) Performing minimization step: 1084. Total energy = 12639.7889 kcal/mol (12637.2857 without restraints) Performing minimization step: 1085. Total energy = 12628.2865 kcal/mol (12625.7851 without restraints) Performing minimization step: 1086. Total energy = 12616.7989 kcal/mol (12614.2992 without restraints) Performing minimization step: 1087. Total energy = 12605.3259 kcal/mol (12602.8279 without restraints) Performing minimization step: 1088. Total energy = 12593.8671 kcal/mol (12591.3709 without restraints) Performing minimization step: 1089. Total energy = 12582.4231 kcal/mol (12579.9286 without restraints) Performing minimization step: 1090. Total energy = 12570.9936 kcal/mol (12568.5008 without restraints) Performing minimization step: 1091. Total energy = 12559.5786 kcal/mol (12557.0875 without restraints) Performing minimization step: 1092. Total energy = 12548.1780 kcal/mol (12545.6886 without restraints) Performing minimization step: 1093. Total energy = 12536.7917 kcal/mol (12534.3041 without restraints) Performing minimization step: 1094. Total energy = 12525.4199 kcal/mol (12522.9339 without restraints) Performing minimization step: 1095. Total energy = 12514.0623 kcal/mol (12511.5781 without restraints) Performing minimization step: 1096. Total energy = 12502.7191 kcal/mol (12500.2365 without restraints) Performing minimization step: 1097. Total energy = 12491.3901 kcal/mol (12488.9092 without restraints) Performing minimization step: 1098. Total energy = 12480.0753 kcal/mol (12477.5961 without restraints) Performing minimization step: 1099. Total energy = 12468.7747 kcal/mol (12466.2972 without restraints) Performing minimization step: 1100. Total energy = 12457.4883 kcal/mol (12455.0125 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 1101. Total energy = 12446.2160 kcal/mol (12443.7419 without restraints) Performing minimization step: 1102. Total energy = 12434.9578 kcal/mol (12432.4853 without restraints) Performing minimization step: 1103. Total energy = 12423.7137 kcal/mol (12421.2429 without restraints) Performing minimization step: 1104. Total energy = 12412.4836 kcal/mol (12410.0145 without restraints) Performing minimization step: 1105. Total energy = 12401.2676 kcal/mol (12398.8000 without restraints) Performing minimization step: 1106. Total energy = 12390.0655 kcal/mol (12387.5996 without restraints) Performing minimization step: 1107. Total energy = 12378.8773 kcal/mol (12376.4131 without restraints) Performing minimization step: 1108. Total energy = 12367.7031 kcal/mol (12365.2405 without restraints) Performing minimization step: 1109. Total energy = 12356.5427 kcal/mol (12354.0818 without restraints) Performing minimization step: 1110. Total energy = 12345.3958 kcal/mol (12342.9365 without restraints) Performing minimization step: 1111. Total energy = 12334.2630 kcal/mol (12331.8053 without restraints) Performing minimization step: 1112. Total energy = 12323.1440 kcal/mol (12320.6880 without restraints) Performing minimization step: 1113. Total energy = 12312.0389 kcal/mol (12309.5845 without restraints) Performing minimization step: 1114. Total energy = 12300.9475 kcal/mol (12298.4947 without restraints) Performing minimization step: 1115. Total energy = 12289.8702 kcal/mol (12287.4191 without restraints) Performing minimization step: 1116. Total energy = 12278.8063 kcal/mol (12276.3567 without restraints) Performing minimization step: 1117. Total energy = 12267.7559 kcal/mol (12265.3079 without restraints) Performing minimization step: 1118. Total energy = 12256.7191 kcal/mol (12254.2728 without restraints) Performing minimization step: 1119. Total energy = 12245.6957 kcal/mol (12243.2510 without restraints) Performing minimization step: 1120. Total energy = 12234.6863 kcal/mol (12232.2431 without restraints) Performing minimization step: 1121. Total energy = 12223.6902 kcal/mol (12221.2486 without restraints) Performing minimization step: 1122. Total energy = 12212.7076 kcal/mol (12210.2676 without restraints) Performing minimization step: 1123. Total energy = 12201.7385 kcal/mol (12199.3001 without restraints) Performing minimization step: 1124. Total energy = 12190.7828 kcal/mol (12188.3460 without restraints) Performing minimization step: 1125. Total energy = 12179.8406 kcal/mol (12177.4053 without restraints) Performing minimization step: 1126. Total energy = 12168.9117 kcal/mol (12166.4780 without restraints) Performing minimization step: 1127. Total energy = 12157.9963 kcal/mol (12155.5642 without restraints) Performing minimization step: 1128. Total energy = 12147.0941 kcal/mol (12144.6636 without restraints) Performing minimization step: 1129. Total energy = 12136.2053 kcal/mol (12133.7763 without restraints) Performing minimization step: 1130. Total energy = 12125.3297 kcal/mol (12122.9023 without restraints) Performing minimization step: 1131. Total energy = 12114.4672 kcal/mol (12112.0413 without restraints) Performing minimization step: 1132. Total energy = 12103.6181 kcal/mol (12101.1938 without restraints) Performing minimization step: 1133. Total energy = 12092.7822 kcal/mol (12090.3595 without restraints) Performing minimization step: 1134. Total energy = 12081.9595 kcal/mol (12079.5383 without restraints) Performing minimization step: 1135. Total energy = 12071.1499 kcal/mol (12068.7303 without restraints) Performing minimization step: 1136. Total energy = 12060.3535 kcal/mol (12057.9354 without restraints) Performing minimization step: 1137. Total energy = 12049.5701 kcal/mol (12047.1535 without restraints) Performing minimization step: 1138. Total energy = 12038.7999 kcal/mol (12036.3848 without restraints) Performing minimization step: 1139. Total energy = 12028.0426 kcal/mol (12025.6291 without restraints) Performing minimization step: 1140. Total energy = 12017.2984 kcal/mol (12014.8863 without restraints) Performing minimization step: 1141. Total energy = 12006.5671 kcal/mol (12004.1566 without restraints) Performing minimization step: 1142. Total energy = 11995.8488 kcal/mol (11993.4399 without restraints) Performing minimization step: 1143. Total energy = 11985.1435 kcal/mol (11982.7360 without restraints) Performing minimization step: 1144. Total energy = 11974.4511 kcal/mol (11972.0451 without restraints) Performing minimization step: 1145. Total energy = 11963.7715 kcal/mol (11961.3671 without restraints) Performing minimization step: 1146. Total energy = 11953.1048 kcal/mol (11950.7019 without restraints) Performing minimization step: 1147. Total energy = 11942.4510 kcal/mol (11940.0495 without restraints) Performing minimization step: 1148. Total energy = 11931.8100 kcal/mol (11929.4100 without restraints) Performing minimization step: 1149. Total energy = 11921.1817 kcal/mol (11918.7832 without restraints) Performing minimization step: 1150. Total energy = 11910.5662 kcal/mol (11908.1692 without restraints) Performing minimization step: 1151. Total energy = 11899.9637 kcal/mol (11897.5682 without restraints) Performing minimization step: 1152. Total energy = 11889.3737 kcal/mol (11886.9797 without restraints) Performing minimization step: 1153. Total energy = 11878.7963 kcal/mol (11876.4038 without restraints) Performing minimization step: 1154. Total energy = 11868.2317 kcal/mol (11865.8406 without restraints) Performing minimization step: 1155. Total energy = 11857.6796 kcal/mol (11855.2900 without restraints) Performing minimization step: 1156. Total energy = 11847.1402 kcal/mol (11844.7521 without restraints) Performing minimization step: 1157. Total energy = 11836.6134 kcal/mol (11834.2267 without restraints) Performing minimization step: 1158. Total energy = 11826.0991 kcal/mol (11823.7139 without restraints) Performing minimization step: 1159. Total energy = 11815.5974 kcal/mol (11813.2136 without restraints) Performing minimization step: 1160. Total energy = 11805.1082 kcal/mol (11802.7259 without restraints) Performing minimization step: 1161. Total energy = 11794.6315 kcal/mol (11792.2506 without restraints) Performing minimization step: 1162. Total energy = 11784.1672 kcal/mol (11781.7879 without restraints) Performing minimization step: 1163. Total energy = 11773.7154 kcal/mol (11771.3375 without restraints) Performing minimization step: 1164. Total energy = 11763.2761 kcal/mol (11760.8996 without restraints) Performing minimization step: 1165. Total energy = 11752.8491 kcal/mol (11750.4741 without restraints) Performing minimization step: 1166. Total energy = 11742.4346 kcal/mol (11740.0610 without restraints) Performing minimization step: 1167. Total energy = 11732.0324 kcal/mol (11729.6602 without restraints) Performing minimization step: 1168. Total energy = 11721.6425 kcal/mol (11719.2718 without restraints) Performing minimization step: 1169. Total energy = 11711.2649 kcal/mol (11708.8956 without restraints) Performing minimization step: 1170. Total energy = 11700.8996 kcal/mol (11698.5318 without restraints) Performing minimization step: 1171. Total energy = 11690.5466 kcal/mol (11688.1802 without restraints) Performing minimization step: 1172. Total energy = 11680.2058 kcal/mol (11677.8408 without restraints) Performing minimization step: 1173. Total energy = 11669.8773 kcal/mol (11667.5137 without restraints) Performing minimization step: 1174. Total energy = 11659.5610 kcal/mol (11657.1988 without restraints) Performing minimization step: 1175. Total energy = 11649.2568 kcal/mol (11646.8960 without restraints) Performing minimization step: 1176. Total energy = 11638.9648 kcal/mol (11636.6054 without restraints) Performing minimization step: 1177. Total energy = 11628.6850 kcal/mol (11626.3270 without restraints) Performing minimization step: 1178. Total energy = 11618.4172 kcal/mol (11616.0606 without restraints) Performing minimization step: 1179. Total energy = 11608.1618 kcal/mol (11605.8066 without restraints) Performing minimization step: 1180. Total energy = 11597.9182 kcal/mol (11595.5644 without restraints) Performing minimization step: 1181. Total energy = 11587.6866 kcal/mol (11585.3342 without restraints) Performing minimization step: 1182. Total energy = 11577.4671 kcal/mol (11575.1161 without restraints) Performing minimization step: 1183. Total energy = 11567.2596 kcal/mol (11564.9100 without restraints) Performing minimization step: 1184. Total energy = 11557.0641 kcal/mol (11554.7159 without restraints) Performing minimization step: 1185. Total energy = 11546.8805 kcal/mol (11544.5337 without restraints) Performing minimization step: 1186. Total energy = 11536.7089 kcal/mol (11534.3634 without restraints) Performing minimization step: 1187. Total energy = 11526.5492 kcal/mol (11524.2051 without restraints) Performing minimization step: 1188. Total energy = 11516.4014 kcal/mol (11514.0587 without restraints) Performing minimization step: 1189. Total energy = 11506.2655 kcal/mol (11503.9241 without restraints) Performing minimization step: 1190. Total energy = 11496.1414 kcal/mol (11493.8014 without restraints) Performing minimization step: 1191. Total energy = 11486.0291 kcal/mol (11483.6905 without restraints) Performing minimization step: 1192. Total energy = 11475.9287 kcal/mol (11473.5915 without restraints) Performing minimization step: 1193. Total energy = 11465.8404 kcal/mol (11463.5045 without restraints) Performing minimization step: 1194. Total energy = 11455.7635 kcal/mol (11453.4290 without restraints) Performing minimization step: 1195. Total energy = 11445.6985 kcal/mol (11443.3653 without restraints) Performing minimization step: 1196. Total energy = 11435.6452 kcal/mol (11433.3133 without restraints) Performing minimization step: 1197. Total energy = 11425.6035 kcal/mol (11423.2730 without restraints) Performing minimization step: 1198. Total energy = 11415.5736 kcal/mol (11413.2445 without restraints) Performing minimization step: 1199. Total energy = 11405.5553 kcal/mol (11403.2276 without restraints) Performing minimization step: 1200. Total energy = 11395.5487 kcal/mol (11393.2221 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 1201. Total energy = 11385.5538 kcal/mol (11383.2287 without restraints) Performing minimization step: 1202. Total energy = 11375.5705 kcal/mol (11373.2467 without restraints) Performing minimization step: 1203. Total energy = 11365.5987 kcal/mol (11363.2762 without restraints) Performing minimization step: 1204. Total energy = 11355.6385 kcal/mol (11353.3174 without restraints) Performing minimization step: 1205. Total energy = 11345.6897 kcal/mol (11343.3699 without restraints) Performing minimization step: 1206. Total energy = 11335.7526 kcal/mol (11333.4341 without restraints) Performing minimization step: 1207. Total energy = 11325.8270 kcal/mol (11323.5099 without restraints) Performing minimization step: 1208. Total energy = 11315.9130 kcal/mol (11313.5972 without restraints) Performing minimization step: 1209. Total energy = 11306.0104 kcal/mol (11303.6959 without restraints) Performing minimization step: 1210. Total energy = 11296.1193 kcal/mol (11293.8061 without restraints) Performing minimization step: 1211. Total energy = 11286.2396 kcal/mol (11283.9278 without restraints) Performing minimization step: 1212. Total energy = 11276.3714 kcal/mol (11274.0608 without restraints) Performing minimization step: 1213. Total energy = 11266.5146 kcal/mol (11264.2053 without restraints) Performing minimization step: 1214. Total energy = 11256.6691 kcal/mol (11254.3611 without restraints) Performing minimization step: 1215. Total energy = 11246.8350 kcal/mol (11244.5284 without restraints) Performing minimization step: 1216. Total energy = 11237.0123 kcal/mol (11234.7069 without restraints) Performing minimization step: 1217. Total energy = 11227.2009 kcal/mol (11224.8968 without restraints) Performing minimization step: 1218. Total energy = 11217.4008 kcal/mol (11215.0980 without restraints) Performing minimization step: 1219. Total energy = 11207.6120 kcal/mol (11205.3105 without restraints) Performing minimization step: 1220. Total energy = 11197.8345 kcal/mol (11195.5343 without restraints) Performing minimization step: 1221. Total energy = 11188.0682 kcal/mol (11185.7693 without restraints) Performing minimization step: 1222. Total energy = 11178.3132 kcal/mol (11176.0156 without restraints) Performing minimization step: 1223. Total energy = 11168.5694 kcal/mol (11166.2730 without restraints) Performing minimization step: 1224. Total energy = 11158.8369 kcal/mol (11156.5419 without restraints) Performing minimization step: 1225. Total energy = 11149.1155 kcal/mol (11146.8218 without restraints) Performing minimization step: 1226. Total energy = 11139.4053 kcal/mol (11137.1128 without restraints) Performing minimization step: 1227. Total energy = 11129.7062 kcal/mol (11127.4149 without restraints) Performing minimization step: 1228. Total energy = 11120.0182 kcal/mol (11117.7282 without restraints) Performing minimization step: 1229. Total energy = 11110.3414 kcal/mol (11108.0526 without restraints) Performing minimization step: 1230. Total energy = 11100.6756 kcal/mol (11098.3881 without restraints) Performing minimization step: 1231. Total energy = 11091.0209 kcal/mol (11088.7347 without restraints) Performing minimization step: 1232. Total energy = 11081.3773 kcal/mol (11079.0923 without restraints) Performing minimization step: 1233. Total energy = 11071.7446 kcal/mol (11069.4610 without restraints) Performing minimization step: 1234. Total energy = 11062.1233 kcal/mol (11059.8409 without restraints) Performing minimization step: 1235. Total energy = 11052.5129 kcal/mol (11050.2318 without restraints) Performing minimization step: 1236. Total energy = 11042.9134 kcal/mol (11040.6334 without restraints) Performing minimization step: 1237. Total energy = 11033.3248 kcal/mol (11031.0461 without restraints) Performing minimization step: 1238. Total energy = 11023.7471 kcal/mol (11021.4697 without restraints) Performing minimization step: 1239. Total energy = 11014.1804 kcal/mol (11011.9043 without restraints) Performing minimization step: 1240. Total energy = 11004.6249 kcal/mol (11002.3499 without restraints) Performing minimization step: 1241. Total energy = 10995.0800 kcal/mol (10992.8063 without restraints) Performing minimization step: 1242. Total energy = 10985.5460 kcal/mol (10983.2735 without restraints) Performing minimization step: 1243. Total energy = 10976.0228 kcal/mol (10973.7513 without restraints) Performing minimization step: 1244. Total energy = 10966.5103 kcal/mol (10964.2403 without restraints) Performing minimization step: 1245. Total energy = 10957.0087 kcal/mol (10954.7399 without restraints) Performing minimization step: 1246. Total energy = 10947.5183 kcal/mol (10945.2507 without restraints) Performing minimization step: 1247. Total energy = 10938.0385 kcal/mol (10935.7721 without restraints) Performing minimization step: 1248. Total energy = 10928.5695 kcal/mol (10926.3044 without restraints) Performing minimization step: 1249. Total energy = 10919.1112 kcal/mol (10916.8473 without restraints) Performing minimization step: 1250. Total energy = 10909.6637 kcal/mol (10907.4011 without restraints) Performing minimization step: 1251. Total energy = 10900.2270 kcal/mol (10897.9655 without restraints) Performing minimization step: 1252. Total energy = 10890.8010 kcal/mol (10888.5407 without restraints) Performing minimization step: 1253. Total energy = 10881.3857 kcal/mol (10879.1266 without restraints) Performing minimization step: 1254. Total energy = 10871.9812 kcal/mol (10869.7234 without restraints) Performing minimization step: 1255. Total energy = 10862.5872 kcal/mol (10860.3306 without restraints) Performing minimization step: 1256. Total energy = 10853.2039 kcal/mol (10850.9485 without restraints) Performing minimization step: 1257. Total energy = 10843.8313 kcal/mol (10841.5771 without restraints) Performing minimization step: 1258. Total energy = 10834.4693 kcal/mol (10832.2162 without restraints) Performing minimization step: 1259. Total energy = 10825.1178 kcal/mol (10822.8660 without restraints) Performing minimization step: 1260. Total energy = 10815.7770 kcal/mol (10813.5264 without restraints) Performing minimization step: 1261. Total energy = 10806.4468 kcal/mol (10804.1973 without restraints) Performing minimization step: 1262. Total energy = 10797.1273 kcal/mol (10794.8791 without restraints) Performing minimization step: 1263. Total energy = 10787.8182 kcal/mol (10785.5711 without restraints) Performing minimization step: 1264. Total energy = 10778.5196 kcal/mol (10776.2737 without restraints) Performing minimization step: 1265. Total energy = 10769.2315 kcal/mol (10766.9868 without restraints) Performing minimization step: 1266. Total energy = 10759.9539 kcal/mol (10757.7104 without restraints) Performing minimization step: 1267. Total energy = 10750.6867 kcal/mol (10748.4444 without restraints) Performing minimization step: 1268. Total energy = 10741.4300 kcal/mol (10739.1889 without restraints) Performing minimization step: 1269. Total energy = 10732.1836 kcal/mol (10729.9437 without restraints) Performing minimization step: 1270. Total energy = 10722.9479 kcal/mol (10720.7091 without restraints) Performing minimization step: 1271. Total energy = 10713.7225 kcal/mol (10711.4849 without restraints) Performing minimization step: 1272. Total energy = 10704.5074 kcal/mol (10702.2707 without restraints) Performing minimization step: 1273. Total energy = 10695.3026 kcal/mol (10693.0673 without restraints) Performing minimization step: 1274. Total energy = 10686.1085 kcal/mol (10683.8743 without restraints) Performing minimization step: 1275. Total energy = 10676.9246 kcal/mol (10674.6917 without restraints) Performing minimization step: 1276. Total energy = 10667.7512 kcal/mol (10665.5194 without restraints) Performing minimization step: 1277. Total energy = 10658.5880 kcal/mol (10656.3574 without restraints) Performing minimization step: 1278. Total energy = 10649.4352 kcal/mol (10647.2057 without restraints) Performing minimization step: 1279. Total energy = 10640.2927 kcal/mol (10638.0644 without restraints) Performing minimization step: 1280. Total energy = 10631.1605 kcal/mol (10628.9333 without restraints) Performing minimization step: 1281. Total energy = 10622.0385 kcal/mol (10619.8125 without restraints) Performing minimization step: 1282. Total energy = 10612.9268 kcal/mol (10610.7019 without restraints) Performing minimization step: 1283. Total energy = 10603.8253 kcal/mol (10601.6016 without restraints) Performing minimization step: 1284. Total energy = 10594.7341 kcal/mol (10592.5115 without restraints) Performing minimization step: 1285. Total energy = 10585.6530 kcal/mol (10583.4316 without restraints) Performing minimization step: 1286. Total energy = 10576.5822 kcal/mol (10574.3619 without restraints) Performing minimization step: 1287. Total energy = 10567.5215 kcal/mol (10565.3024 without restraints) Performing minimization step: 1288. Total energy = 10558.4711 kcal/mol (10556.2530 without restraints) Performing minimization step: 1289. Total energy = 10549.4307 kcal/mol (10547.2138 without restraints) Performing minimization step: 1290. Total energy = 10540.4005 kcal/mol (10538.1848 without restraints) Performing minimization step: 1291. Total energy = 10531.3805 kcal/mol (10529.1658 without restraints) Performing minimization step: 1292. Total energy = 10522.3705 kcal/mol (10520.1570 without restraints) Performing minimization step: 1293. Total energy = 10513.3706 kcal/mol (10511.1583 without restraints) Performing minimization step: 1294. Total energy = 10504.3809 kcal/mol (10502.1696 without restraints) Performing minimization step: 1295. Total energy = 10495.4011 kcal/mol (10493.1910 without restraints) Performing minimization step: 1296. Total energy = 10486.4315 kcal/mol (10484.2225 without restraints) Performing minimization step: 1297. Total energy = 10477.4719 kcal/mol (10475.2640 without restraints) Performing minimization step: 1298. Total energy = 10468.5225 kcal/mol (10466.3157 without restraints) Performing minimization step: 1299. Total energy = 10459.5829 kcal/mol (10457.3773 without restraints) Performing minimization step: 1300. Total energy = 10450.6533 kcal/mol (10448.4488 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 1301. Total energy = 10441.7337 kcal/mol (10439.5303 without restraints) Performing minimization step: 1302. Total energy = 10432.8241 kcal/mol (10430.6217 without restraints) Performing minimization step: 1303. Total energy = 10423.9244 kcal/mol (10421.7231 without restraints) Performing minimization step: 1304. Total energy = 10415.0346 kcal/mol (10412.8345 without restraints) Performing minimization step: 1305. Total energy = 10406.1548 kcal/mol (10403.9558 without restraints) Performing minimization step: 1306. Total energy = 10397.2849 kcal/mol (10395.0870 without restraints) Performing minimization step: 1307. Total energy = 10388.4249 kcal/mol (10386.2281 without restraints) Performing minimization step: 1308. Total energy = 10379.5747 kcal/mol (10377.3790 without restraints) Performing minimization step: 1309. Total energy = 10370.7345 kcal/mol (10368.5399 without restraints) Performing minimization step: 1310. Total energy = 10361.9041 kcal/mol (10359.7106 without restraints) Performing minimization step: 1311. Total energy = 10353.0836 kcal/mol (10350.8912 without restraints) Performing minimization step: 1312. Total energy = 10344.2727 kcal/mol (10342.0813 without restraints) Performing minimization step: 1313. Total energy = 10335.4718 kcal/mol (10333.2815 without restraints) Performing minimization step: 1314. Total energy = 10326.6807 kcal/mol (10324.4915 without restraints) Performing minimization step: 1315. Total energy = 10317.8994 kcal/mol (10315.7113 without restraints) Performing minimization step: 1316. Total energy = 10309.1278 kcal/mol (10306.9408 without restraints) Performing minimization step: 1317. Total energy = 10300.3659 kcal/mol (10298.1801 without restraints) Performing minimization step: 1318. Total energy = 10291.6141 kcal/mol (10289.4292 without restraints) Performing minimization step: 1319. Total energy = 10282.8718 kcal/mol (10280.6880 without restraints) Performing minimization step: 1320. Total energy = 10274.1392 kcal/mol (10271.9565 without restraints) Performing minimization step: 1321. Total energy = 10265.4164 kcal/mol (10263.2348 without restraints) Performing minimization step: 1322. Total energy = 10256.7032 kcal/mol (10254.5227 without restraints) Performing minimization step: 1323. Total energy = 10247.9999 kcal/mol (10245.8205 without restraints) Performing minimization step: 1324. Total energy = 10239.3061 kcal/mol (10237.1277 without restraints) Performing minimization step: 1325. Total energy = 10230.6220 kcal/mol (10228.4447 without restraints) Performing minimization step: 1326. Total energy = 10221.9475 kcal/mol (10219.7712 without restraints) Performing minimization step: 1327. Total energy = 10213.2827 kcal/mol (10211.1074 without restraints) Performing minimization step: 1328. Total energy = 10204.6275 kcal/mol (10202.4533 without restraints) Performing minimization step: 1329. Total energy = 10195.9818 kcal/mol (10193.8087 without restraints) Performing minimization step: 1330. Total energy = 10187.3458 kcal/mol (10185.1737 without restraints) Performing minimization step: 1331. Total energy = 10178.7193 kcal/mol (10176.5483 without restraints) Performing minimization step: 1332. Total energy = 10170.1024 kcal/mol (10167.9325 without restraints) Performing minimization step: 1333. Total energy = 10161.4951 kcal/mol (10159.3262 without restraints) Performing minimization step: 1334. Total energy = 10152.8973 kcal/mol (10150.7295 without restraints) Performing minimization step: 1335. Total energy = 10144.3090 kcal/mol (10142.1422 without restraints) Performing minimization step: 1336. Total energy = 10135.7303 kcal/mol (10133.5645 without restraints) Performing minimization step: 1337. Total energy = 10127.1610 kcal/mol (10124.9963 without restraints) Performing minimization step: 1338. Total energy = 10118.6012 kcal/mol (10116.4376 without restraints) Performing minimization step: 1339. Total energy = 10110.0508 kcal/mol (10107.8882 without restraints) Performing minimization step: 1340. Total energy = 10101.5099 kcal/mol (10099.3484 without restraints) Performing minimization step: 1341. Total energy = 10092.9786 kcal/mol (10090.8181 without restraints) Performing minimization step: 1342. Total energy = 10084.4567 kcal/mol (10082.2972 without restraints) Performing minimization step: 1343. Total energy = 10075.9444 kcal/mol (10073.7859 without restraints) Performing minimization step: 1344. Total energy = 10067.4413 kcal/mol (10065.2839 without restraints) Performing minimization step: 1345. Total energy = 10058.9476 kcal/mol (10056.7912 without restraints) Performing minimization step: 1346. Total energy = 10050.4633 kcal/mol (10048.3080 without restraints) Performing minimization step: 1347. Total energy = 10041.9886 kcal/mol (10039.8343 without restraints) Performing minimization step: 1348. Total energy = 10033.5231 kcal/mol (10031.3698 without restraints) Performing minimization step: 1349. Total energy = 10025.0670 kcal/mol (10022.9148 without restraints) Performing minimization step: 1350. Total energy = 10016.6203 kcal/mol (10014.4690 without restraints) Performing minimization step: 1351. Total energy = 10008.1828 kcal/mol (10006.0325 without restraints) Performing minimization step: 1352. Total energy = 9999.7547 kcal/mol (9997.6055 without restraints) Performing minimization step: 1353. Total energy = 9991.3358 kcal/mol (9989.1876 without restraints) Performing minimization step: 1354. Total energy = 9982.9262 kcal/mol (9980.7791 without restraints) Performing minimization step: 1355. Total energy = 9974.5259 kcal/mol (9972.3797 without restraints) Performing minimization step: 1356. Total energy = 9966.1348 kcal/mol (9963.9897 without restraints) Performing minimization step: 1357. Total energy = 9957.7530 kcal/mol (9955.6089 without restraints) Performing minimization step: 1358. Total energy = 9949.3805 kcal/mol (9947.2373 without restraints) Performing minimization step: 1359. Total energy = 9941.0168 kcal/mol (9938.8746 without restraints) Performing minimization step: 1360. Total energy = 9932.6627 kcal/mol (9930.5215 without restraints) Performing minimization step: 1361. Total energy = 9924.3178 kcal/mol (9922.1776 without restraints) Performing minimization step: 1362. Total energy = 9915.9821 kcal/mol (9913.8429 without restraints) Performing minimization step: 1363. Total energy = 9907.6555 kcal/mol (9905.5174 without restraints) Performing minimization step: 1364. Total energy = 9899.3384 kcal/mol (9897.2013 without restraints) Performing minimization step: 1365. Total energy = 9891.0303 kcal/mol (9888.8941 without restraints) Performing minimization step: 1366. Total energy = 9882.7312 kcal/mol (9880.5961 without restraints) Performing minimization step: 1367. Total energy = 9874.4413 kcal/mol (9872.3072 without restraints) Performing minimization step: 1368. Total energy = 9866.1606 kcal/mol (9864.0274 without restraints) Performing minimization step: 1369. Total energy = 9857.8889 kcal/mol (9855.7567 without restraints) Performing minimization step: 1370. Total energy = 9849.6264 kcal/mol (9847.4952 without restraints) Performing minimization step: 1371. Total energy = 9841.3729 kcal/mol (9839.2427 without restraints) Performing minimization step: 1372. Total energy = 9833.1289 kcal/mol (9830.9997 without restraints) Performing minimization step: 1373. Total energy = 9824.8936 kcal/mol (9822.7654 without restraints) Performing minimization step: 1374. Total energy = 9816.6674 kcal/mol (9814.5402 without restraints) Performing minimization step: 1375. Total energy = 9808.4502 kcal/mol (9806.3239 without restraints) Performing minimization step: 1376. Total energy = 9800.2420 kcal/mol (9798.1167 without restraints) Performing minimization step: 1377. Total energy = 9792.0429 kcal/mol (9789.9186 without restraints) Performing minimization step: 1378. Total energy = 9783.8527 kcal/mol (9781.7294 without restraints) Performing minimization step: 1379. Total energy = 9775.6716 kcal/mol (9773.5492 without restraints) Performing minimization step: 1380. Total energy = 9767.4994 kcal/mol (9765.3781 without restraints) Performing minimization step: 1381. Total energy = 9759.3363 kcal/mol (9757.2158 without restraints) Performing minimization step: 1382. Total energy = 9751.1820 kcal/mol (9749.0626 without restraints) Performing minimization step: 1383. Total energy = 9743.0367 kcal/mol (9740.9183 without restraints) Performing minimization step: 1384. Total energy = 9734.9004 kcal/mol (9732.7829 without restraints) Performing minimization step: 1385. Total energy = 9726.7731 kcal/mol (9724.6565 without restraints) Performing minimization step: 1386. Total energy = 9718.6546 kcal/mol (9716.5390 without restraints) Performing minimization step: 1387. Total energy = 9710.5452 kcal/mol (9708.4306 without restraints) Performing minimization step: 1388. Total energy = 9702.4446 kcal/mol (9700.3309 without restraints) Performing minimization step: 1389. Total energy = 9694.3526 kcal/mol (9692.2399 without restraints) Performing minimization step: 1390. Total energy = 9686.2696 kcal/mol (9684.1579 without restraints) Performing minimization step: 1391. Total energy = 9678.1956 kcal/mol (9676.0848 without restraints) Performing minimization step: 1392. Total energy = 9670.1304 kcal/mol (9668.0206 without restraints) Performing minimization step: 1393. Total energy = 9662.0741 kcal/mol (9659.9652 without restraints) Performing minimization step: 1394. Total energy = 9654.0265 kcal/mol (9651.9186 without restraints) Performing minimization step: 1395. Total energy = 9645.9878 kcal/mol (9643.8809 without restraints) Performing minimization step: 1396. Total energy = 9637.9579 kcal/mol (9635.8519 without restraints) Performing minimization step: 1397. Total energy = 9629.9368 kcal/mol (9627.8317 without restraints) Performing minimization step: 1398. Total energy = 9621.9245 kcal/mol (9619.8204 without restraints) Performing minimization step: 1399. Total energy = 9613.9209 kcal/mol (9611.8177 without restraints) Performing minimization step: 1400. Total energy = 9605.9262 kcal/mol (9603.8239 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 1401. Total energy = 9597.9401 kcal/mol (9595.8388 without restraints) Performing minimization step: 1402. Total energy = 9589.9628 kcal/mol (9587.8624 without restraints) Performing minimization step: 1403. Total energy = 9581.9943 kcal/mol (9579.8948 without restraints) Performing minimization step: 1404. Total energy = 9574.0344 kcal/mol (9571.9359 without restraints) Performing minimization step: 1405. Total energy = 9566.0833 kcal/mol (9563.9857 without restraints) Performing minimization step: 1406. Total energy = 9558.1410 kcal/mol (9556.0445 without restraints) Performing minimization step: 1407. Total energy = 9550.2074 kcal/mol (9548.1117 without restraints) Performing minimization step: 1408. Total energy = 9542.2823 kcal/mol (9540.1875 without restraints) Performing minimization step: 1409. Total energy = 9534.3659 kcal/mol (9532.2721 without restraints) Performing minimization step: 1410. Total energy = 9526.4582 kcal/mol (9524.3653 without restraints) Performing minimization step: 1411. Total energy = 9518.5591 kcal/mol (9516.4671 without restraints) Performing minimization step: 1412. Total energy = 9510.6686 kcal/mol (9508.5776 without restraints) Performing minimization step: 1413. Total energy = 9502.7868 kcal/mol (9500.6966 without restraints) Performing minimization step: 1414. Total energy = 9494.9139 kcal/mol (9492.8247 without restraints) Performing minimization step: 1415. Total energy = 9487.0493 kcal/mol (9484.9610 without restraints) Performing minimization step: 1416. Total energy = 9479.1933 kcal/mol (9477.1059 without restraints) Performing minimization step: 1417. Total energy = 9471.3458 kcal/mol (9469.2594 without restraints) Performing minimization step: 1418. Total energy = 9463.5070 kcal/mol (9461.4214 without restraints) Performing minimization step: 1419. Total energy = 9455.6767 kcal/mol (9453.5920 without restraints) Performing minimization step: 1420. Total energy = 9447.8549 kcal/mol (9445.7712 without restraints) Performing minimization step: 1421. Total energy = 9440.0417 kcal/mol (9437.9588 without restraints) Performing minimization step: 1422. Total energy = 9432.2370 kcal/mol (9430.1551 without restraints) Performing minimization step: 1423. Total energy = 9424.4408 kcal/mol (9422.3598 without restraints) Performing minimization step: 1424. Total energy = 9416.6532 kcal/mol (9414.5730 without restraints) Performing minimization step: 1425. Total energy = 9408.8740 kcal/mol (9406.7948 without restraints) Performing minimization step: 1426. Total energy = 9401.1033 kcal/mol (9399.0250 without restraints) Performing minimization step: 1427. Total energy = 9393.3409 kcal/mol (9391.2634 without restraints) Performing minimization step: 1428. Total energy = 9385.5873 kcal/mol (9383.5108 without restraints) Performing minimization step: 1429. Total energy = 9377.8421 kcal/mol (9375.7665 without restraints) Performing minimization step: 1430. Total energy = 9370.1052 kcal/mol (9368.0305 without restraints) Performing minimization step: 1431. Total energy = 9362.3768 kcal/mol (9360.3030 without restraints) Performing minimization step: 1432. Total energy = 9354.6568 kcal/mol (9352.5839 without restraints) Performing minimization step: 1433. Total energy = 9346.9453 kcal/mol (9344.8732 without restraints) Performing minimization step: 1434. Total energy = 9339.2421 kcal/mol (9337.1710 without restraints) Performing minimization step: 1435. Total energy = 9331.5474 kcal/mol (9329.4771 without restraints) Performing minimization step: 1436. Total energy = 9323.8610 kcal/mol (9321.7916 without restraints) Performing minimization step: 1437. Total energy = 9316.1830 kcal/mol (9314.1145 without restraints) Performing minimization step: 1438. Total energy = 9308.5133 kcal/mol (9306.4457 without restraints) Performing minimization step: 1439. Total energy = 9300.8520 kcal/mol (9298.7853 without restraints) Performing minimization step: 1440. Total energy = 9293.1991 kcal/mol (9291.1333 without restraints) Performing minimization step: 1441. Total energy = 9285.5545 kcal/mol (9283.4896 without restraints) Performing minimization step: 1442. Total energy = 9277.9182 kcal/mol (9275.8542 without restraints) Performing minimization step: 1443. Total energy = 9270.2902 kcal/mol (9268.2271 without restraints) Performing minimization step: 1444. Total energy = 9262.6706 kcal/mol (9260.6083 without restraints) Performing minimization step: 1445. Total energy = 9255.0592 kcal/mol (9252.9978 without restraints) Performing minimization step: 1446. Total energy = 9247.4561 kcal/mol (9245.3956 without restraints) Performing minimization step: 1447. Total energy = 9239.8613 kcal/mol (9237.8016 without restraints) Performing minimization step: 1448. Total energy = 9232.2748 kcal/mol (9230.2159 without restraints) Performing minimization step: 1449. Total energy = 9224.6965 kcal/mol (9222.6385 without restraints) Performing minimization step: 1450. Total energy = 9217.1264 kcal/mol (9215.0693 without restraints) Performing minimization step: 1451. Total energy = 9209.5646 kcal/mol (9207.5084 without restraints) Performing minimization step: 1452. Total energy = 9202.0110 kcal/mol (9199.9556 without restraints) Performing minimization step: 1453. Total energy = 9194.4656 kcal/mol (9192.4111 without restraints) Performing minimization step: 1454. Total energy = 9186.9284 kcal/mol (9184.8748 without restraints) Performing minimization step: 1455. Total energy = 9179.3998 kcal/mol (9177.3470 without restraints) Performing minimization step: 1456. Total energy = 9171.8790 kcal/mol (9169.8271 without restraints) Performing minimization step: 1457. Total energy = 9164.3664 kcal/mol (9162.3153 without restraints) Performing minimization step: 1458. Total energy = 9156.8619 kcal/mol (9154.8117 without restraints) Performing minimization step: 1459. Total energy = 9149.3656 kcal/mol (9147.3163 without restraints) Performing minimization step: 1460. Total energy = 9141.8772 kcal/mol (9139.8288 without restraints) Performing minimization step: 1461. Total energy = 9134.3972 kcal/mol (9132.3496 without restraints) Performing minimization step: 1462. Total energy = 9126.9253 kcal/mol (9124.8786 without restraints) Performing minimization step: 1463. Total energy = 9119.4616 kcal/mol (9117.4156 without restraints) Performing minimization step: 1464. Total energy = 9112.0059 kcal/mol (9109.9608 without restraints) Performing minimization step: 1465. Total energy = 9104.5584 kcal/mol (9102.5141 without restraints) Performing minimization step: 1466. Total energy = 9097.1189 kcal/mol (9095.0755 without restraints) Performing minimization step: 1467. Total energy = 9089.6875 kcal/mol (9087.6450 without restraints) Performing minimization step: 1468. Total energy = 9082.2642 kcal/mol (9080.2225 without restraints) Performing minimization step: 1469. Total energy = 9074.8489 kcal/mol (9072.8081 without restraints) Performing minimization step: 1470. Total energy = 9067.4417 kcal/mol (9065.4017 without restraints) Performing minimization step: 1471. Total energy = 9060.0425 kcal/mol (9058.0034 without restraints) Performing minimization step: 1472. Total energy = 9052.6514 kcal/mol (9050.6131 without restraints) Performing minimization step: 1473. Total energy = 9045.2683 kcal/mol (9043.2308 without restraints) Performing minimization step: 1474. Total energy = 9037.8932 kcal/mol (9035.8565 without restraints) Performing minimization step: 1475. Total energy = 9030.5261 kcal/mol (9028.4903 without restraints) Performing minimization step: 1476. Total energy = 9023.1670 kcal/mol (9021.1320 without restraints) Performing minimization step: 1477. Total energy = 9015.8158 kcal/mol (9013.7817 without restraints) Performing minimization step: 1478. Total energy = 9008.4727 kcal/mol (9006.4394 without restraints) Performing minimization step: 1479. Total energy = 9001.1376 kcal/mol (8999.1053 without restraints) Performing minimization step: 1480. Total energy = 8993.8105 kcal/mol (8991.7788 without restraints) Performing minimization step: 1481. Total energy = 8986.4912 kcal/mol (8984.4604 without restraints) Performing minimization step: 1482. Total energy = 8979.1799 kcal/mol (8977.1499 without restraints) Performing minimization step: 1483. Total energy = 8971.8762 kcal/mol (8969.8471 without restraints) Performing minimization step: 1484. Total energy = 8964.5807 kcal/mol (8962.5524 without restraints) Performing minimization step: 1485. Total energy = 8957.2932 kcal/mol (8955.2656 without restraints) Performing minimization step: 1486. Total energy = 8950.0135 kcal/mol (8947.9868 without restraints) Performing minimization step: 1487. Total energy = 8942.7415 kcal/mol (8940.7156 without restraints) Performing minimization step: 1488. Total energy = 8935.4771 kcal/mol (8933.4520 without restraints) Performing minimization step: 1489. Total energy = 8928.2211 kcal/mol (8926.1968 without restraints) Performing minimization step: 1490. Total energy = 8920.9729 kcal/mol (8918.9494 without restraints) Performing minimization step: 1491. Total energy = 8913.7325 kcal/mol (8911.7098 without restraints) Performing minimization step: 1492. Total energy = 8906.5000 kcal/mol (8904.4781 without restraints) Performing minimization step: 1493. Total energy = 8899.2753 kcal/mol (8897.2543 without restraints) Performing minimization step: 1494. Total energy = 8892.0585 kcal/mol (8890.0383 without restraints) Performing minimization step: 1495. Total energy = 8884.8495 kcal/mol (8882.8301 without restraints) Performing minimization step: 1496. Total energy = 8877.6481 kcal/mol (8875.6295 without restraints) Performing minimization step: 1497. Total energy = 8870.4547 kcal/mol (8868.4369 without restraints) Performing minimization step: 1498. Total energy = 8863.2691 kcal/mol (8861.2521 without restraints) Performing minimization step: 1499. Total energy = 8856.0915 kcal/mol (8854.0753 without restraints) Performing minimization step: 1500. Total energy = 8848.9214 kcal/mol (8846.9060 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 1501. Total energy = 8841.7591 kcal/mol (8839.7445 without restraints) Performing minimization step: 1502. Total energy = 8834.6046 kcal/mol (8832.5908 without restraints) Performing minimization step: 1503. Total energy = 8827.4580 kcal/mol (8825.4450 without restraints) Performing minimization step: 1504. Total energy = 8820.3187 kcal/mol (8818.3065 without restraints) Performing minimization step: 1505. Total energy = 8813.1873 kcal/mol (8811.1759 without restraints) Performing minimization step: 1506. Total energy = 8806.0637 kcal/mol (8804.0531 without restraints) Performing minimization step: 1507. Total energy = 8798.9480 kcal/mol (8796.9382 without restraints) Performing minimization step: 1508. Total energy = 8791.8398 kcal/mol (8789.8308 without restraints) Performing minimization step: 1509. Total energy = 8784.7393 kcal/mol (8782.7311 without restraints) Performing minimization step: 1510. Total energy = 8777.6465 kcal/mol (8775.6390 without restraints) Performing minimization step: 1511. Total energy = 8770.5613 kcal/mol (8768.5546 without restraints) Performing minimization step: 1512. Total energy = 8763.4838 kcal/mol (8761.4779 without restraints) Performing minimization step: 1513. Total energy = 8756.4139 kcal/mol (8754.4088 without restraints) Performing minimization step: 1514. Total energy = 8749.3517 kcal/mol (8747.3474 without restraints) Performing minimization step: 1515. Total energy = 8742.2973 kcal/mol (8740.2938 without restraints) Performing minimization step: 1516. Total energy = 8735.2504 kcal/mol (8733.2477 without restraints) Performing minimization step: 1517. Total energy = 8728.2111 kcal/mol (8726.2091 without restraints) Performing minimization step: 1518. Total energy = 8721.1792 kcal/mol (8719.1780 without restraints) Performing minimization step: 1519. Total energy = 8714.1551 kcal/mol (8712.1547 without restraints) Performing minimization step: 1520. Total energy = 8707.1386 kcal/mol (8705.1390 without restraints) Performing minimization step: 1521. Total energy = 8700.1297 kcal/mol (8698.1308 without restraints) Performing minimization step: 1522. Total energy = 8693.1283 kcal/mol (8691.1302 without restraints) Performing minimization step: 1523. Total energy = 8686.1345 kcal/mol (8684.1372 without restraints) Performing minimization step: 1524. Total energy = 8679.1483 kcal/mol (8677.1517 without restraints) Performing minimization step: 1525. Total energy = 8672.1696 kcal/mol (8670.1738 without restraints) Performing minimization step: 1526. Total energy = 8665.1985 kcal/mol (8663.2035 without restraints) Performing minimization step: 1527. Total energy = 8658.2349 kcal/mol (8656.2406 without restraints) Performing minimization step: 1528. Total energy = 8651.2781 kcal/mol (8649.2846 without restraints) Performing minimization step: 1529. Total energy = 8644.3295 kcal/mol (8642.3368 without restraints) Performing minimization step: 1530. Total energy = 8637.3884 kcal/mol (8635.3965 without restraints) Performing minimization step: 1531. Total energy = 8630.4549 kcal/mol (8628.4637 without restraints) Performing minimization step: 1532. Total energy = 8623.5288 kcal/mol (8621.5384 without restraints) Performing minimization step: 1533. Total energy = 8616.6102 kcal/mol (8614.6206 without restraints) Performing minimization step: 1534. Total energy = 8609.6991 kcal/mol (8607.7102 without restraints) Performing minimization step: 1535. Total energy = 8602.7955 kcal/mol (8600.8073 without restraints) Performing minimization step: 1536. Total energy = 8595.8993 kcal/mol (8593.9119 without restraints) Performing minimization step: 1537. Total energy = 8589.0105 kcal/mol (8587.0239 without restraints) Performing minimization step: 1538. Total energy = 8582.1292 kcal/mol (8580.1433 without restraints) Performing minimization step: 1539. Total energy = 8575.2553 kcal/mol (8573.2702 without restraints) Performing minimization step: 1540. Total energy = 8568.3889 kcal/mol (8566.4045 without restraints) Performing minimization step: 1541. Total energy = 8561.5298 kcal/mol (8559.5462 without restraints) Performing minimization step: 1542. Total energy = 8554.6782 kcal/mol (8552.6953 without restraints) Performing minimization step: 1543. Total energy = 8547.8339 kcal/mol (8545.8517 without restraints) Performing minimization step: 1544. Total energy = 8540.9970 kcal/mol (8539.0156 without restraints) Performing minimization step: 1545. Total energy = 8534.1675 kcal/mol (8532.1869 without restraints) Performing minimization step: 1546. Total energy = 8527.3454 kcal/mol (8525.3655 without restraints) Performing minimization step: 1547. Total energy = 8520.5306 kcal/mol (8518.5515 without restraints) Performing minimization step: 1548. Total energy = 8513.7232 kcal/mol (8511.7448 without restraints) Performing minimization step: 1549. Total energy = 8506.9232 kcal/mol (8504.9455 without restraints) Performing minimization step: 1550. Total energy = 8500.1305 kcal/mol (8498.1535 without restraints) Performing minimization step: 1551. Total energy = 8493.3451 kcal/mol (8491.3689 without restraints) Performing minimization step: 1552. Total energy = 8486.5670 kcal/mol (8484.5916 without restraints) Performing minimization step: 1553. Total energy = 8479.7963 kcal/mol (8477.8215 without restraints) Performing minimization step: 1554. Total energy = 8473.0328 kcal/mol (8471.0589 without restraints) Performing minimization step: 1555. Total energy = 8466.2767 kcal/mol (8464.3034 without restraints) Performing minimization step: 1556. Total energy = 8459.5278 kcal/mol (8457.5553 without restraints) Performing minimization step: 1557. Total energy = 8452.7863 kcal/mol (8450.8146 without restraints) Performing minimization step: 1558. Total energy = 8446.0521 kcal/mol (8444.0811 without restraints) Performing minimization step: 1559. Total energy = 8439.3250 kcal/mol (8437.3547 without restraints) Performing minimization step: 1560. Total energy = 8432.6052 kcal/mol (8430.6356 without restraints) Performing minimization step: 1561. Total energy = 8425.8927 kcal/mol (8423.9238 without restraints) Performing minimization step: 1562. Total energy = 8419.1874 kcal/mol (8417.2193 without restraints) Performing minimization step: 1563. Total energy = 8412.4893 kcal/mol (8410.5219 without restraints) Performing minimization step: 1564. Total energy = 8405.7985 kcal/mol (8403.8318 without restraints) Performing minimization step: 1565. Total energy = 8399.1151 kcal/mol (8397.1491 without restraints) Performing minimization step: 1566. Total energy = 8392.4387 kcal/mol (8390.4735 without restraints) Performing minimization step: 1567. Total energy = 8385.7698 kcal/mol (8383.8053 without restraints) Performing minimization step: 1568. Total energy = 8379.1077 kcal/mol (8377.1439 without restraints) Performing minimization step: 1569. Total energy = 8372.4528 kcal/mol (8370.4897 without restraints) Performing minimization step: 1570. Total energy = 8365.8051 kcal/mol (8363.8427 without restraints) Performing minimization step: 1571. Total energy = 8359.1646 kcal/mol (8357.2029 without restraints) Performing minimization step: 1572. Total energy = 8352.5312 kcal/mol (8350.5702 without restraints) Performing minimization step: 1573. Total energy = 8345.9049 kcal/mol (8343.9447 without restraints) Performing minimization step: 1574. Total energy = 8339.2858 kcal/mol (8337.3263 without restraints) Performing minimization step: 1575. Total energy = 8332.6739 kcal/mol (8330.7151 without restraints) Performing minimization step: 1576. Total energy = 8326.0690 kcal/mol (8324.1109 without restraints) Performing minimization step: 1577. Total energy = 8319.4713 kcal/mol (8317.5139 without restraints) Performing minimization step: 1578. Total energy = 8312.8807 kcal/mol (8310.9240 without restraints) Performing minimization step: 1579. Total energy = 8306.2972 kcal/mol (8304.3412 without restraints) Performing minimization step: 1580. Total energy = 8299.7207 kcal/mol (8297.7654 without restraints) Performing minimization step: 1581. Total energy = 8293.1514 kcal/mol (8291.1968 without restraints) Performing minimization step: 1582. Total energy = 8286.5891 kcal/mol (8284.6352 without restraints) Performing minimization step: 1583. Total energy = 8280.0345 kcal/mol (8278.0813 without restraints) Performing minimization step: 1584. Total energy = 8273.4863 kcal/mol (8271.5338 without restraints) Performing minimization step: 1585. Total energy = 8266.9455 kcal/mol (8264.9937 without restraints) Performing minimization step: 1586. Total energy = 8260.4116 kcal/mol (8258.4605 without restraints) Performing minimization step: 1587. Total energy = 8253.8848 kcal/mol (8251.9344 without restraints) Performing minimization step: 1588. Total energy = 8247.3648 kcal/mol (8245.4152 without restraints) Performing minimization step: 1589. Total energy = 8240.8519 kcal/mol (8238.9029 without restraints) Performing minimization step: 1590. Total energy = 8234.3459 kcal/mol (8232.3976 without restraints) Performing minimization step: 1591. Total energy = 8227.8470 kcal/mol (8225.8994 without restraints) Performing minimization step: 1592. Total energy = 8221.3550 kcal/mol (8219.4081 without restraints) Performing minimization step: 1593. Total energy = 8214.8701 kcal/mol (8212.9238 without restraints) Performing minimization step: 1594. Total energy = 8208.3921 kcal/mol (8206.4465 without restraints) Performing minimization step: 1595. Total energy = 8201.9211 kcal/mol (8199.9762 without restraints) Performing minimization step: 1596. Total energy = 8195.4570 kcal/mol (8193.5128 without restraints) Performing minimization step: 1597. Total energy = 8188.9999 kcal/mol (8187.0564 without restraints) Performing minimization step: 1598. Total energy = 8182.5498 kcal/mol (8180.6070 without restraints) Performing minimization step: 1599. Total energy = 8176.1066 kcal/mol (8174.1645 without restraints) Performing minimization step: 1600. Total energy = 8169.6703 kcal/mol (8167.7289 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 1601. Total energy = 8163.2410 kcal/mol (8161.3002 without restraints) Performing minimization step: 1602. Total energy = 8156.8188 kcal/mol (8154.8787 without restraints) Performing minimization step: 1603. Total energy = 8150.4033 kcal/mol (8148.4639 without restraints) Performing minimization step: 1604. Total energy = 8143.9947 kcal/mol (8142.0560 without restraints) Performing minimization step: 1605. Total energy = 8137.5929 kcal/mol (8135.6548 without restraints) Performing minimization step: 1606. Total energy = 8131.1981 kcal/mol (8129.2607 without restraints) Performing minimization step: 1607. Total energy = 8124.8101 kcal/mol (8122.8734 without restraints) Performing minimization step: 1608. Total energy = 8118.4291 kcal/mol (8116.4930 without restraints) Performing minimization step: 1609. Total energy = 8112.0549 kcal/mol (8110.1195 without restraints) Performing minimization step: 1610. Total energy = 8105.6875 kcal/mol (8103.7528 without restraints) Performing minimization step: 1611. Total energy = 8099.3270 kcal/mol (8097.3930 without restraints) Performing minimization step: 1612. Total energy = 8092.9734 kcal/mol (8091.0400 without restraints) Performing minimization step: 1613. Total energy = 8086.6266 kcal/mol (8084.6939 without restraints) Performing minimization step: 1614. Total energy = 8080.2866 kcal/mol (8078.3546 without restraints) Performing minimization step: 1615. Total energy = 8073.9536 kcal/mol (8072.0222 without restraints) Performing minimization step: 1616. Total energy = 8067.6271 kcal/mol (8065.6963 without restraints) Performing minimization step: 1617. Total energy = 8061.3074 kcal/mol (8059.3774 without restraints) Performing minimization step: 1618. Total energy = 8054.9947 kcal/mol (8053.0653 without restraints) Performing minimization step: 1619. Total energy = 8048.6887 kcal/mol (8046.7600 without restraints) Performing minimization step: 1620. Total energy = 8042.3895 kcal/mol (8040.4614 without restraints) Performing minimization step: 1621. Total energy = 8036.0972 kcal/mol (8034.1699 without restraints) Performing minimization step: 1622. Total energy = 8029.8116 kcal/mol (8027.8849 without restraints) Performing minimization step: 1623. Total energy = 8023.5330 kcal/mol (8021.6069 without restraints) Performing minimization step: 1624. Total energy = 8017.2606 kcal/mol (8015.3352 without restraints) Performing minimization step: 1625. Total energy = 8010.9952 kcal/mol (8009.0705 without restraints) Performing minimization step: 1626. Total energy = 8004.7366 kcal/mol (8002.8125 without restraints) Performing minimization step: 1627. Total energy = 7998.4846 kcal/mol (7996.5610 without restraints) Performing minimization step: 1628. Total energy = 7992.2392 kcal/mol (7990.3164 without restraints) Performing minimization step: 1629. Total energy = 7986.0007 kcal/mol (7984.0785 without restraints) Performing minimization step: 1630. Total energy = 7979.7689 kcal/mol (7977.8474 without restraints) Performing minimization step: 1631. Total energy = 7973.5438 kcal/mol (7971.6230 without restraints) Performing minimization step: 1632. Total energy = 7967.3255 kcal/mol (7965.4054 without restraints) Performing minimization step: 1633. Total energy = 7961.1139 kcal/mol (7959.1944 without restraints) Performing minimization step: 1634. Total energy = 7954.9089 kcal/mol (7952.9900 without restraints) Performing minimization step: 1635. Total energy = 7948.7106 kcal/mol (7946.7924 without restraints) Performing minimization step: 1636. Total energy = 7942.5189 kcal/mol (7940.6013 without restraints) Performing minimization step: 1637. Total energy = 7936.3339 kcal/mol (7934.4169 without restraints) Performing minimization step: 1638. Total energy = 7930.1555 kcal/mol (7928.2392 without restraints) Performing minimization step: 1639. Total energy = 7923.9838 kcal/mol (7922.0681 without restraints) Performing minimization step: 1640. Total energy = 7917.8186 kcal/mol (7915.9036 without restraints) Performing minimization step: 1641. Total energy = 7911.6602 kcal/mol (7909.7457 without restraints) Performing minimization step: 1642. Total energy = 7905.5083 kcal/mol (7903.5945 without restraints) Performing minimization step: 1643. Total energy = 7899.3630 kcal/mol (7897.4499 without restraints) Performing minimization step: 1644. Total energy = 7893.2244 kcal/mol (7891.3118 without restraints) Performing minimization step: 1645. Total energy = 7887.0923 kcal/mol (7885.1804 without restraints) Performing minimization step: 1646. Total energy = 7880.9668 kcal/mol (7879.0556 without restraints) Performing minimization step: 1647. Total energy = 7874.8479 kcal/mol (7872.9373 without restraints) Performing minimization step: 1648. Total energy = 7868.7356 kcal/mol (7866.8256 without restraints) Performing minimization step: 1649. Total energy = 7862.6299 kcal/mol (7860.7205 without restraints) Performing minimization step: 1650. Total energy = 7856.5309 kcal/mol (7854.6223 without restraints) Performing minimization step: 1651. Total energy = 7850.4385 kcal/mol (7848.5304 without restraints) Performing minimization step: 1652. Total energy = 7844.3524 kcal/mol (7842.4449 without restraints) Performing minimization step: 1653. Total energy = 7838.2729 kcal/mol (7836.3660 without restraints) Performing minimization step: 1654. Total energy = 7832.1998 kcal/mol (7830.2936 without restraints) Performing minimization step: 1655. Total energy = 7826.1333 kcal/mol (7824.2277 without restraints) Performing minimization step: 1656. Total energy = 7820.0734 kcal/mol (7818.1684 without restraints) Performing minimization step: 1657. Total energy = 7814.0199 kcal/mol (7812.1155 without restraints) Performing minimization step: 1658. Total energy = 7807.9730 kcal/mol (7806.0692 without restraints) Performing minimization step: 1659. Total energy = 7801.9325 kcal/mol (7800.0294 without restraints) Performing minimization step: 1660. Total energy = 7795.8988 kcal/mol (7793.9962 without restraints) Performing minimization step: 1661. Total energy = 7789.8713 kcal/mol (7787.9694 without restraints) Performing minimization step: 1662. Total energy = 7783.8502 kcal/mol (7781.9490 without restraints) Performing minimization step: 1663. Total energy = 7777.8357 kcal/mol (7775.9350 without restraints) Performing minimization step: 1664. Total energy = 7771.8276 kcal/mol (7769.9275 without restraints) Performing minimization step: 1665. Total energy = 7765.8260 kcal/mol (7763.9265 without restraints) Performing minimization step: 1666. Total energy = 7759.8308 kcal/mol (7757.9319 without restraints) Performing minimization step: 1667. Total energy = 7753.8422 kcal/mol (7751.9440 without restraints) Performing minimization step: 1668. Total energy = 7747.8599 kcal/mol (7745.9623 without restraints) Performing minimization step: 1669. Total energy = 7741.8840 kcal/mol (7739.9870 without restraints) Performing minimization step: 1670. Total energy = 7735.9146 kcal/mol (7734.0182 without restraints) Performing minimization step: 1671. Total energy = 7729.9515 kcal/mol (7728.0557 without restraints) Performing minimization step: 1672. Total energy = 7723.9948 kcal/mol (7722.0996 without restraints) Performing minimization step: 1673. Total energy = 7718.0445 kcal/mol (7716.1499 without restraints) Performing minimization step: 1674. Total energy = 7712.1007 kcal/mol (7710.2067 without restraints) Performing minimization step: 1675. Total energy = 7706.1632 kcal/mol (7704.2698 without restraints) Performing minimization step: 1676. Total energy = 7700.2323 kcal/mol (7698.3395 without restraints) Performing minimization step: 1677. Total energy = 7694.3075 kcal/mol (7692.4153 without restraints) Performing minimization step: 1678. Total energy = 7688.3891 kcal/mol (7686.4976 without restraints) Performing minimization step: 1679. Total energy = 7682.4771 kcal/mol (7680.5861 without restraints) Performing minimization step: 1680. Total energy = 7676.5713 kcal/mol (7674.6809 without restraints) Performing minimization step: 1681. Total energy = 7670.6720 kcal/mol (7668.7822 without restraints) Performing minimization step: 1682. Total energy = 7664.7790 kcal/mol (7662.8898 without restraints) Performing minimization step: 1683. Total energy = 7658.8923 kcal/mol (7657.0037 without restraints) Performing minimization step: 1684. Total energy = 7653.0120 kcal/mol (7651.1240 without restraints) Performing minimization step: 1685. Total energy = 7647.1378 kcal/mol (7645.2503 without restraints) Performing minimization step: 1686. Total energy = 7641.2702 kcal/mol (7639.3834 without restraints) Performing minimization step: 1687. Total energy = 7635.4088 kcal/mol (7633.5226 without restraints) Performing minimization step: 1688. Total energy = 7629.5537 kcal/mol (7627.6681 without restraints) Performing minimization step: 1689. Total energy = 7623.7049 kcal/mol (7621.8198 without restraints) Performing minimization step: 1690. Total energy = 7617.8623 kcal/mol (7615.9778 without restraints) Performing minimization step: 1691. Total energy = 7612.0260 kcal/mol (7610.1421 without restraints) Performing minimization step: 1692. Total energy = 7606.1960 kcal/mol (7604.3127 without restraints) Performing minimization step: 1693. Total energy = 7600.3722 kcal/mol (7598.4895 without restraints) Performing minimization step: 1694. Total energy = 7594.5547 kcal/mol (7592.6726 without restraints) Performing minimization step: 1695. Total energy = 7588.7434 kcal/mol (7586.8619 without restraints) Performing minimization step: 1696. Total energy = 7582.9384 kcal/mol (7581.0574 without restraints) Performing minimization step: 1697. Total energy = 7577.1396 kcal/mol (7575.2592 without restraints) Performing minimization step: 1698. Total energy = 7571.3473 kcal/mol (7569.4675 without restraints) Performing minimization step: 1699. Total energy = 7565.5609 kcal/mol (7563.6817 without restraints) Performing minimization step: 1700. Total energy = 7559.7808 kcal/mol (7557.9021 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 1701. Total energy = 7554.0068 kcal/mol (7552.1287 without restraints) Performing minimization step: 1702. Total energy = 7548.2391 kcal/mol (7546.3616 without restraints) Performing minimization step: 1703. Total energy = 7542.4775 kcal/mol (7540.6006 without restraints) Performing minimization step: 1704. Total energy = 7536.7221 kcal/mol (7534.8458 without restraints) Performing minimization step: 1705. Total energy = 7530.9730 kcal/mol (7529.0972 without restraints) Performing minimization step: 1706. Total energy = 7525.2301 kcal/mol (7523.3549 without restraints) Performing minimization step: 1707. Total energy = 7519.4933 kcal/mol (7517.6187 without restraints) Performing minimization step: 1708. Total energy = 7513.7627 kcal/mol (7511.8886 without restraints) Performing minimization step: 1709. Total energy = 7508.0379 kcal/mol (7506.1644 without restraints) Performing minimization step: 1710. Total energy = 7502.3196 kcal/mol (7500.4466 without restraints) Performing minimization step: 1711. Total energy = 7496.6075 kcal/mol (7494.7352 without restraints) Performing minimization step: 1712. Total energy = 7490.9014 kcal/mol (7489.0296 without restraints) Performing minimization step: 1713. Total energy = 7485.2014 kcal/mol (7483.3302 without restraints) Performing minimization step: 1714. Total energy = 7479.5077 kcal/mol (7477.6371 without restraints) Performing minimization step: 1715. Total energy = 7473.8200 kcal/mol (7471.9499 without restraints) Performing minimization step: 1716. Total energy = 7468.1384 kcal/mol (7466.2688 without restraints) Performing minimization step: 1717. Total energy = 7462.4628 kcal/mol (7460.5938 without restraints) Performing minimization step: 1718. Total energy = 7456.7933 kcal/mol (7454.9249 without restraints) Performing minimization step: 1719. Total energy = 7451.1302 kcal/mol (7449.2624 without restraints) Performing minimization step: 1720. Total energy = 7445.4729 kcal/mol (7443.6056 without restraints) Performing minimization step: 1721. Total energy = 7439.8217 kcal/mol (7437.9550 without restraints) Performing minimization step: 1722. Total energy = 7434.1766 kcal/mol (7432.3103 without restraints) Performing minimization step: 1723. Total energy = 7428.5377 kcal/mol (7426.6720 without restraints) Performing minimization step: 1724. Total energy = 7422.9047 kcal/mol (7421.0396 without restraints) Performing minimization step: 1725. Total energy = 7417.2777 kcal/mol (7415.4131 without restraints) Performing minimization step: 1726. Total energy = 7411.6567 kcal/mol (7409.7927 without restraints) Performing minimization step: 1727. Total energy = 7406.0418 kcal/mol (7404.1784 without restraints) Performing minimization step: 1728. Total energy = 7400.4329 kcal/mol (7398.5700 without restraints) Performing minimization step: 1729. Total energy = 7394.8300 kcal/mol (7392.9677 without restraints) Performing minimization step: 1730. Total energy = 7389.2332 kcal/mol (7387.3714 without restraints) Performing minimization step: 1731. Total energy = 7383.6423 kcal/mol (7381.7811 without restraints) Performing minimization step: 1732. Total energy = 7378.0576 kcal/mol (7376.1970 without restraints) Performing minimization step: 1733. Total energy = 7372.4788 kcal/mol (7370.6187 without restraints) Performing minimization step: 1734. Total energy = 7366.9059 kcal/mol (7365.0463 without restraints) Performing minimization step: 1735. Total energy = 7361.3391 kcal/mol (7359.4800 without restraints) Performing minimization step: 1736. Total energy = 7355.7781 kcal/mol (7353.9196 without restraints) Performing minimization step: 1737. Total energy = 7350.2232 kcal/mol (7348.3652 without restraints) Performing minimization step: 1738. Total energy = 7344.6742 kcal/mol (7342.8168 without restraints) Performing minimization step: 1739. Total energy = 7339.1312 kcal/mol (7337.2743 without restraints) Performing minimization step: 1740. Total energy = 7333.5941 kcal/mol (7331.7378 without restraints) Performing minimization step: 1741. Total energy = 7328.0630 kcal/mol (7326.2072 without restraints) Performing minimization step: 1742. Total energy = 7322.5378 kcal/mol (7320.6825 without restraints) Performing minimization step: 1743. Total energy = 7317.0185 kcal/mol (7315.1638 without restraints) Performing minimization step: 1744. Total energy = 7311.5052 kcal/mol (7309.6510 without restraints) Performing minimization step: 1745. Total energy = 7305.9978 kcal/mol (7304.1441 without restraints) Performing minimization step: 1746. Total energy = 7300.4963 kcal/mol (7298.6431 without restraints) Performing minimization step: 1747. Total energy = 7295.0006 kcal/mol (7293.1480 without restraints) Performing minimization step: 1748. Total energy = 7289.5109 kcal/mol (7287.6588 without restraints) Performing minimization step: 1749. Total energy = 7284.0270 kcal/mol (7282.1753 without restraints) Performing minimization step: 1750. Total energy = 7278.5490 kcal/mol (7276.6979 without restraints) Performing minimization step: 1751. Total energy = 7273.0769 kcal/mol (7271.2264 without restraints) Performing minimization step: 1752. Total energy = 7267.6108 kcal/mol (7265.7610 without restraints) Performing minimization step: 1753. Total energy = 7262.1506 kcal/mol (7260.3012 without restraints) Performing minimization step: 1754. Total energy = 7256.6962 kcal/mol (7254.8473 without restraints) Performing minimization step: 1755. Total energy = 7251.2478 kcal/mol (7249.3994 without restraints) Performing minimization step: 1756. Total energy = 7245.8051 kcal/mol (7243.9572 without restraints) Performing minimization step: 1757. Total energy = 7240.3684 kcal/mol (7238.5211 without restraints) Performing minimization step: 1758. Total energy = 7234.9374 kcal/mol (7233.0905 without restraints) Performing minimization step: 1759. Total energy = 7229.5122 kcal/mol (7227.6658 without restraints) Performing minimization step: 1760. Total energy = 7224.0927 kcal/mol (7222.2469 without restraints) Performing minimization step: 1761. Total energy = 7218.6790 kcal/mol (7216.8337 without restraints) Performing minimization step: 1762. Total energy = 7213.2712 kcal/mol (7211.4265 without restraints) Performing minimization step: 1763. Total energy = 7207.8693 kcal/mol (7206.0250 without restraints) Performing minimization step: 1764. Total energy = 7202.4731 kcal/mol (7200.6294 without restraints) Performing minimization step: 1765. Total energy = 7197.0828 kcal/mol (7195.2397 without restraints) Performing minimization step: 1766. Total energy = 7191.6983 kcal/mol (7189.8556 without restraints) Performing minimization step: 1767. Total energy = 7186.3195 kcal/mol (7184.4773 without restraints) Performing minimization step: 1768. Total energy = 7180.9465 kcal/mol (7179.1048 without restraints) Performing minimization step: 1769. Total energy = 7175.5792 kcal/mol (7173.7381 without restraints) Performing minimization step: 1770. Total energy = 7170.2178 kcal/mol (7168.3771 without restraints) Performing minimization step: 1771. Total energy = 7164.8618 kcal/mol (7163.0217 without restraints) Performing minimization step: 1772. Total energy = 7159.5118 kcal/mol (7157.6722 without restraints) Performing minimization step: 1773. Total energy = 7154.1676 kcal/mol (7152.3285 without restraints) Performing minimization step: 1774. Total energy = 7148.8291 kcal/mol (7146.9905 without restraints) Performing minimization step: 1775. Total energy = 7143.4963 kcal/mol (7141.6582 without restraints) Performing minimization step: 1776. Total energy = 7138.1693 kcal/mol (7136.3317 without restraints) Performing minimization step: 1777. Total energy = 7132.8479 kcal/mol (7131.0108 without restraints) Performing minimization step: 1778. Total energy = 7127.5323 kcal/mol (7125.6957 without restraints) Performing minimization step: 1779. Total energy = 7122.2224 kcal/mol (7120.3863 without restraints) Performing minimization step: 1780. Total energy = 7116.9182 kcal/mol (7115.0826 without restraints) Performing minimization step: 1781. Total energy = 7111.6197 kcal/mol (7109.7846 without restraints) Performing minimization step: 1782. Total energy = 7106.3274 kcal/mol (7104.4928 without restraints) Performing minimization step: 1783. Total energy = 7101.0402 kcal/mol (7099.2062 without restraints) Performing minimization step: 1784. Total energy = 7095.7588 kcal/mol (7093.9252 without restraints) Performing minimization step: 1785. Total energy = 7090.4830 kcal/mol (7088.6499 without restraints) Performing minimization step: 1786. Total energy = 7085.2129 kcal/mol (7083.3803 without restraints) Performing minimization step: 1787. Total energy = 7079.9484 kcal/mol (7078.1163 without restraints) Performing minimization step: 1788. Total energy = 7074.6896 kcal/mol (7072.8580 without restraints) Performing minimization step: 1789. Total energy = 7069.4365 kcal/mol (7067.6054 without restraints) Performing minimization step: 1790. Total energy = 7064.1890 kcal/mol (7062.3584 without restraints) Performing minimization step: 1791. Total energy = 7058.9471 kcal/mol (7057.1170 without restraints) Performing minimization step: 1792. Total energy = 7053.7109 kcal/mol (7051.8812 without restraints) Performing minimization step: 1793. Total energy = 7048.4802 kcal/mol (7046.6511 without restraints) Performing minimization step: 1794. Total energy = 7043.2552 kcal/mol (7041.4266 without restraints) Performing minimization step: 1795. Total energy = 7038.0359 kcal/mol (7036.2077 without restraints) Performing minimization step: 1796. Total energy = 7032.8221 kcal/mol (7030.9944 without restraints) Performing minimization step: 1797. Total energy = 7027.6139 kcal/mol (7025.7867 without restraints) Performing minimization step: 1798. Total energy = 7022.4113 kcal/mol (7020.5846 without restraints) Performing minimization step: 1799. Total energy = 7017.2143 kcal/mol (7015.3881 without restraints) Performing minimization step: 1800. Total energy = 7012.0229 kcal/mol (7010.1972 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 1801. Total energy = 7006.8373 kcal/mol (7005.0121 without restraints) Performing minimization step: 1802. Total energy = 7001.6571 kcal/mol (6999.8323 without restraints) Performing minimization step: 1803. Total energy = 6996.4824 kcal/mol (6994.6581 without restraints) Performing minimization step: 1804. Total energy = 6991.3130 kcal/mol (6989.4892 without restraints) Performing minimization step: 1805. Total energy = 6986.1494 kcal/mol (6984.3261 without restraints) Performing minimization step: 1806. Total energy = 6980.9914 kcal/mol (6979.1685 without restraints) Performing minimization step: 1807. Total energy = 6975.8389 kcal/mol (6974.0165 without restraints) Performing minimization step: 1808. Total energy = 6970.6921 kcal/mol (6968.8702 without restraints) Performing minimization step: 1809. Total energy = 6965.5507 kcal/mol (6963.7293 without restraints) Performing minimization step: 1810. Total energy = 6960.4148 kcal/mol (6958.5939 without restraints) Performing minimization step: 1811. Total energy = 6955.2844 kcal/mol (6953.4639 without restraints) Performing minimization step: 1812. Total energy = 6950.1595 kcal/mol (6948.3395 without restraints) Performing minimization step: 1813. Total energy = 6945.0403 kcal/mol (6943.2208 without restraints) Performing minimization step: 1814. Total energy = 6939.9265 kcal/mol (6938.1074 without restraints) Performing minimization step: 1815. Total energy = 6934.8181 kcal/mol (6932.9995 without restraints) Performing minimization step: 1816. Total energy = 6929.7152 kcal/mol (6927.8971 without restraints) Performing minimization step: 1817. Total energy = 6924.6178 kcal/mol (6922.8002 without restraints) Performing minimization step: 1818. Total energy = 6919.5259 kcal/mol (6917.7087 without restraints) Performing minimization step: 1819. Total energy = 6914.4394 kcal/mol (6912.6227 without restraints) Performing minimization step: 1820. Total energy = 6909.3584 kcal/mol (6907.5422 without restraints) Performing minimization step: 1821. Total energy = 6904.2831 kcal/mol (6902.4673 without restraints) Performing minimization step: 1822. Total energy = 6899.2130 kcal/mol (6897.3977 without restraints) Performing minimization step: 1823. Total energy = 6894.1484 kcal/mol (6892.3336 without restraints) Performing minimization step: 1824. Total energy = 6889.0892 kcal/mol (6887.2749 without restraints) Performing minimization step: 1825. Total energy = 6884.0355 kcal/mol (6882.2216 without restraints) Performing minimization step: 1826. Total energy = 6878.9872 kcal/mol (6877.1737 without restraints) Performing minimization step: 1827. Total energy = 6873.9443 kcal/mol (6872.1313 without restraints) Performing minimization step: 1828. Total energy = 6868.9068 kcal/mol (6867.0943 without restraints) Performing minimization step: 1829. Total energy = 6863.8748 kcal/mol (6862.0627 without restraints) Performing minimization step: 1830. Total energy = 6858.8482 kcal/mol (6857.0366 without restraints) Performing minimization step: 1831. Total energy = 6853.8269 kcal/mol (6852.0158 without restraints) Performing minimization step: 1832. Total energy = 6848.8111 kcal/mol (6847.0004 without restraints) Performing minimization step: 1833. Total energy = 6843.8007 kcal/mol (6841.9904 without restraints) Performing minimization step: 1834. Total energy = 6838.7956 kcal/mol (6836.9858 without restraints) Performing minimization step: 1835. Total energy = 6833.7959 kcal/mol (6831.9866 without restraints) Performing minimization step: 1836. Total energy = 6828.8016 kcal/mol (6826.9928 without restraints) Performing minimization step: 1837. Total energy = 6823.8127 kcal/mol (6822.0043 without restraints) Performing minimization step: 1838. Total energy = 6818.8292 kcal/mol (6817.0212 without restraints) Performing minimization step: 1839. Total energy = 6813.8509 kcal/mol (6812.0434 without restraints) Performing minimization step: 1840. Total energy = 6808.8781 kcal/mol (6807.0710 without restraints) Performing minimization step: 1841. Total energy = 6803.9106 kcal/mol (6802.1040 without restraints) Performing minimization step: 1842. Total energy = 6798.9484 kcal/mol (6797.1423 without restraints) Performing minimization step: 1843. Total energy = 6793.9918 kcal/mol (6792.1861 without restraints) Performing minimization step: 1844. Total energy = 6789.0403 kcal/mol (6787.2350 without restraints) Performing minimization step: 1845. Total energy = 6784.0941 kcal/mol (6782.2893 without restraints) Performing minimization step: 1846. Total energy = 6779.1533 kcal/mol (6777.3489 without restraints) Performing minimization step: 1847. Total energy = 6774.2178 kcal/mol (6772.4138 without restraints) Performing minimization step: 1848. Total energy = 6769.2875 kcal/mol (6767.4840 without restraints) Performing minimization step: 1849. Total energy = 6764.3627 kcal/mol (6762.5596 without restraints) Performing minimization step: 1850. Total energy = 6759.4430 kcal/mol (6757.6404 without restraints) Performing minimization step: 1851. Total energy = 6754.5287 kcal/mol (6752.7265 without restraints) Performing minimization step: 1852. Total energy = 6749.6197 kcal/mol (6747.8179 without restraints) Performing minimization step: 1853. Total energy = 6744.7159 kcal/mol (6742.9146 without restraints) Performing minimization step: 1854. Total energy = 6739.8174 kcal/mol (6738.0166 without restraints) Performing minimization step: 1855. Total energy = 6734.9242 kcal/mol (6733.1238 without restraints) Performing minimization step: 1856. Total energy = 6730.0362 kcal/mol (6728.2363 without restraints) Performing minimization step: 1857. Total energy = 6725.1535 kcal/mol (6723.3540 without restraints) Performing minimization step: 1858. Total energy = 6720.2761 kcal/mol (6718.4770 without restraints) Performing minimization step: 1859. Total energy = 6715.4039 kcal/mol (6713.6052 without restraints) Performing minimization step: 1860. Total energy = 6710.5370 kcal/mol (6708.7387 without restraints) Performing minimization step: 1861. Total energy = 6705.6753 kcal/mol (6703.8775 without restraints) Performing minimization step: 1862. Total energy = 6700.8188 kcal/mol (6699.0214 without restraints) Performing minimization step: 1863. Total energy = 6695.9675 kcal/mol (6694.1706 without restraints) Performing minimization step: 1864. Total energy = 6691.1215 kcal/mol (6689.3250 without restraints) Performing minimization step: 1865. Total energy = 6686.2807 kcal/mol (6684.4846 without restraints) Performing minimization step: 1866. Total energy = 6681.4451 kcal/mol (6679.6494 without restraints) Performing minimization step: 1867. Total energy = 6676.6147 kcal/mol (6674.8195 without restraints) Performing minimization step: 1868. Total energy = 6671.7895 kcal/mol (6669.9947 without restraints) Performing minimization step: 1869. Total energy = 6666.9695 kcal/mol (6665.1751 without restraints) Performing minimization step: 1870. Total energy = 6662.1547 kcal/mol (6660.3607 without restraints) Performing minimization step: 1871. Total energy = 6657.3448 kcal/mol (6655.5513 without restraints) Performing minimization step: 1872. Total energy = 6652.5406 kcal/mol (6650.7475 without restraints) Performing minimization step: 1873. Total energy = 6647.7415 kcal/mol (6645.9488 without restraints) Performing minimization step: 1874. Total energy = 6642.9474 kcal/mol (6641.1552 without restraints) Performing minimization step: 1875. Total energy = 6638.1584 kcal/mol (6636.3666 without restraints) Performing minimization step: 1876. Total energy = 6633.3746 kcal/mol (6631.5832 without restraints) Performing minimization step: 1877. Total energy = 6628.5960 kcal/mol (6626.8050 without restraints) Performing minimization step: 1878. Total energy = 6623.8225 kcal/mol (6622.0319 without restraints) Performing minimization step: 1879. Total energy = 6619.0541 kcal/mol (6617.2640 without restraints) Performing minimization step: 1880. Total energy = 6614.2909 kcal/mol (6612.5012 without restraints) Performing minimization step: 1881. Total energy = 6609.5329 kcal/mol (6607.7437 without restraints) Performing minimization step: 1882. Total energy = 6604.7800 kcal/mol (6602.9911 without restraints) Performing minimization step: 1883. Total energy = 6600.0323 kcal/mol (6598.2439 without restraints) Performing minimization step: 1884. Total energy = 6595.2896 kcal/mol (6593.5015 without restraints) Performing minimization step: 1885. Total energy = 6590.5519 kcal/mol (6588.7643 without restraints) Performing minimization step: 1886. Total energy = 6585.8194 kcal/mol (6584.0322 without restraints) Performing minimization step: 1887. Total energy = 6581.0920 kcal/mol (6579.3051 without restraints) Performing minimization step: 1888. Total energy = 6576.3696 kcal/mol (6574.5832 without restraints) Performing minimization step: 1889. Total energy = 6571.6526 kcal/mol (6569.8666 without restraints) Performing minimization step: 1890. Total energy = 6566.9402 kcal/mol (6565.1546 without restraints) Performing minimization step: 1891. Total energy = 6562.2332 kcal/mol (6560.4480 without restraints) Performing minimization step: 1892. Total energy = 6557.5312 kcal/mol (6555.7464 without restraints) Performing minimization step: 1893. Total energy = 6552.8344 kcal/mol (6551.0501 without restraints) Performing minimization step: 1894. Total energy = 6548.1425 kcal/mol (6546.3586 without restraints) Performing minimization step: 1895. Total energy = 6543.4557 kcal/mol (6541.6721 without restraints) Performing minimization step: 1896. Total energy = 6538.7739 kcal/mol (6536.9908 without restraints) Performing minimization step: 1897. Total energy = 6534.0972 kcal/mol (6532.3144 without restraints) Performing minimization step: 1898. Total energy = 6529.4255 kcal/mol (6527.6431 without restraints) Performing minimization step: 1899. Total energy = 6524.7588 kcal/mol (6522.9768 without restraints) Performing minimization step: 1900. Total energy = 6520.0972 kcal/mol (6518.3156 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 1901. Total energy = 6515.4406 kcal/mol (6513.6594 without restraints) Performing minimization step: 1902. Total energy = 6510.7890 kcal/mol (6509.0082 without restraints) Performing minimization step: 1903. Total energy = 6506.1424 kcal/mol (6504.3620 without restraints) Performing minimization step: 1904. Total energy = 6501.5010 kcal/mol (6499.7211 without restraints) Performing minimization step: 1905. Total energy = 6496.8645 kcal/mol (6495.0849 without restraints) Performing minimization step: 1906. Total energy = 6492.2329 kcal/mol (6490.4538 without restraints) Performing minimization step: 1907. Total energy = 6487.6064 kcal/mol (6485.8276 without restraints) Performing minimization step: 1908. Total energy = 6482.9848 kcal/mol (6481.2064 without restraints) Performing minimization step: 1909. Total energy = 6478.3683 kcal/mol (6476.5904 without restraints) Performing minimization step: 1910. Total energy = 6473.7568 kcal/mol (6471.9792 without restraints) Performing minimization step: 1911. Total energy = 6469.1502 kcal/mol (6467.3730 without restraints) Performing minimization step: 1912. Total energy = 6464.5485 kcal/mol (6462.7717 without restraints) Performing minimization step: 1913. Total energy = 6459.9518 kcal/mol (6458.1754 without restraints) Performing minimization step: 1914. Total energy = 6455.3600 kcal/mol (6453.5840 without restraints) Performing minimization step: 1915. Total energy = 6450.7732 kcal/mol (6448.9976 without restraints) Performing minimization step: 1916. Total energy = 6446.1912 kcal/mol (6444.4159 without restraints) Performing minimization step: 1917. Total energy = 6441.6143 kcal/mol (6439.8394 without restraints) Performing minimization step: 1918. Total energy = 6437.0423 kcal/mol (6435.2678 without restraints) Performing minimization step: 1919. Total energy = 6432.4752 kcal/mol (6430.7012 without restraints) Performing minimization step: 1920. Total energy = 6427.9131 kcal/mol (6426.1394 without restraints) Performing minimization step: 1921. Total energy = 6423.3559 kcal/mol (6421.5826 without restraints) Performing minimization step: 1922. Total energy = 6418.8037 kcal/mol (6417.0307 without restraints) Performing minimization step: 1923. Total energy = 6414.2561 kcal/mol (6412.4836 without restraints) Performing minimization step: 1924. Total energy = 6409.7136 kcal/mol (6407.9415 without restraints) Performing minimization step: 1925. Total energy = 6405.1761 kcal/mol (6403.4043 without restraints) Performing minimization step: 1926. Total energy = 6400.6434 kcal/mol (6398.8720 without restraints) Performing minimization step: 1927. Total energy = 6396.1156 kcal/mol (6394.3446 without restraints) Performing minimization step: 1928. Total energy = 6391.5927 kcal/mol (6389.8221 without restraints) Performing minimization step: 1929. Total energy = 6387.0747 kcal/mol (6385.3045 without restraints) Performing minimization step: 1930. Total energy = 6382.5616 kcal/mol (6380.7917 without restraints) Performing minimization step: 1931. Total energy = 6378.0534 kcal/mol (6376.2839 without restraints) Performing minimization step: 1932. Total energy = 6373.5500 kcal/mol (6371.7809 without restraints) Performing minimization step: 1933. Total energy = 6369.0515 kcal/mol (6367.2828 without restraints) Performing minimization step: 1934. Total energy = 6364.5578 kcal/mol (6362.7895 without restraints) Performing minimization step: 1935. Total energy = 6360.0690 kcal/mol (6358.3010 without restraints) Performing minimization step: 1936. Total energy = 6355.5850 kcal/mol (6353.8174 without restraints) Performing minimization step: 1937. Total energy = 6351.1059 kcal/mol (6349.3387 without restraints) Performing minimization step: 1938. Total energy = 6346.6320 kcal/mol (6344.8651 without restraints) Performing minimization step: 1939. Total energy = 6342.1625 kcal/mol (6340.3960 without restraints) Performing minimization step: 1940. Total energy = 6337.6979 kcal/mol (6335.9318 without restraints) Performing minimization step: 1941. Total energy = 6333.2381 kcal/mol (6331.4723 without restraints) Performing minimization step: 1942. Total energy = 6328.7833 kcal/mol (6327.0180 without restraints) Performing minimization step: 1943. Total energy = 6324.3332 kcal/mol (6322.5681 without restraints) Performing minimization step: 1944. Total energy = 6319.8878 kcal/mol (6318.1232 without restraints) Performing minimization step: 1945. Total energy = 6315.4473 kcal/mol (6313.6830 without restraints) Performing minimization step: 1946. Total energy = 6311.0115 kcal/mol (6309.2476 without restraints) Performing minimization step: 1947. Total energy = 6306.5805 kcal/mol (6304.8169 without restraints) Performing minimization step: 1948. Total energy = 6302.1543 kcal/mol (6300.3912 without restraints) Performing minimization step: 1949. Total energy = 6297.7329 kcal/mol (6295.9701 without restraints) Performing minimization step: 1950. Total energy = 6293.3163 kcal/mol (6291.5538 without restraints) Performing minimization step: 1951. Total energy = 6288.9044 kcal/mol (6287.1423 without restraints) Performing minimization step: 1952. Total energy = 6284.4974 kcal/mol (6282.7357 without restraints) Performing minimization step: 1953. Total energy = 6280.0951 kcal/mol (6278.3337 without restraints) Performing minimization step: 1954. Total energy = 6275.6973 kcal/mol (6273.9363 without restraints) Performing minimization step: 1955. Total energy = 6271.3045 kcal/mol (6269.5439 without restraints) Performing minimization step: 1956. Total energy = 6266.9164 kcal/mol (6265.1561 without restraints) Performing minimization step: 1957. Total energy = 6262.5331 kcal/mol (6260.7732 without restraints) Performing minimization step: 1958. Total energy = 6258.1548 kcal/mol (6256.3952 without restraints) Performing minimization step: 1959. Total energy = 6253.7809 kcal/mol (6252.0217 without restraints) Performing minimization step: 1960. Total energy = 6249.4118 kcal/mol (6247.6529 without restraints) Performing minimization step: 1961. Total energy = 6245.0474 kcal/mol (6243.2889 without restraints) Performing minimization step: 1962. Total energy = 6240.6877 kcal/mol (6238.9296 without restraints) Performing minimization step: 1963. Total energy = 6236.3327 kcal/mol (6234.5749 without restraints) Performing minimization step: 1964. Total energy = 6231.9825 kcal/mol (6230.2250 without restraints) Performing minimization step: 1965. Total energy = 6227.6371 kcal/mol (6225.8800 without restraints) Performing minimization step: 1966. Total energy = 6223.2963 kcal/mol (6221.5395 without restraints) Performing minimization step: 1967. Total energy = 6218.9601 kcal/mol (6217.2038 without restraints) Performing minimization step: 1968. Total energy = 6214.6287 kcal/mol (6212.8726 without restraints) Performing minimization step: 1969. Total energy = 6210.3019 kcal/mol (6208.5462 without restraints) Performing minimization step: 1970. Total energy = 6205.9798 kcal/mol (6204.2244 without restraints) Performing minimization step: 1971. Total energy = 6201.6623 kcal/mol (6199.9073 without restraints) Performing minimization step: 1972. Total energy = 6197.3496 kcal/mol (6195.5949 without restraints) Performing minimization step: 1973. Total energy = 6193.0415 kcal/mol (6191.2872 without restraints) Performing minimization step: 1974. Total energy = 6188.7380 kcal/mol (6186.9841 without restraints) Performing minimization step: 1975. Total energy = 6184.4392 kcal/mol (6182.6856 without restraints) Performing minimization step: 1976. Total energy = 6180.1451 kcal/mol (6178.3918 without restraints) Performing minimization step: 1977. Total energy = 6175.8556 kcal/mol (6174.1027 without restraints) Performing minimization step: 1978. Total energy = 6171.5712 kcal/mol (6169.8186 without restraints) Performing minimization step: 1979. Total energy = 6167.2910 kcal/mol (6165.5388 without restraints) Performing minimization step: 1980. Total energy = 6163.0154 kcal/mol (6161.2635 without restraints) Performing minimization step: 1981. Total energy = 6158.7446 kcal/mol (6156.9930 without restraints) Performing minimization step: 1982. Total energy = 6154.4782 kcal/mol (6152.7270 without restraints) Performing minimization step: 1983. Total energy = 6150.2167 kcal/mol (6148.4658 without restraints) Performing minimization step: 1984. Total energy = 6145.9596 kcal/mol (6144.2090 without restraints) Performing minimization step: 1985. Total energy = 6141.7071 kcal/mol (6139.9569 without restraints) Performing minimization step: 1986. Total energy = 6137.4592 kcal/mol (6135.7094 without restraints) Performing minimization step: 1987. Total energy = 6133.2160 kcal/mol (6131.4664 without restraints) Performing minimization step: 1988. Total energy = 6128.9773 kcal/mol (6127.2281 without restraints) Performing minimization step: 1989. Total energy = 6124.7432 kcal/mol (6122.9943 without restraints) Performing minimization step: 1990. Total energy = 6120.5139 kcal/mol (6118.7653 without restraints) Performing minimization step: 1991. Total energy = 6116.2889 kcal/mol (6114.5407 without restraints) Performing minimization step: 1992. Total energy = 6112.0683 kcal/mol (6110.3205 without restraints) Performing minimization step: 1993. Total energy = 6107.8526 kcal/mol (6106.1050 without restraints) Performing minimization step: 1994. Total energy = 6103.6417 kcal/mol (6101.8945 without restraints) Performing minimization step: 1995. Total energy = 6099.4350 kcal/mol (6097.6882 without restraints) Performing minimization step: 1996. Total energy = 6095.2329 kcal/mol (6093.4864 without restraints) Performing minimization step: 1997. Total energy = 6091.0356 kcal/mol (6089.2894 without restraints) Performing minimization step: 1998. Total energy = 6086.8426 kcal/mol (6085.0967 without restraints) Performing minimization step: 1999. Total energy = 6082.6542 kcal/mol (6080.9086 without restraints) Performing minimization step: 2000. Total energy = 6078.4703 kcal/mol (6076.7251 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 2001. Total energy = 6074.2909 kcal/mol (6072.5460 without restraints) Performing minimization step: 2002. Total energy = 6070.1161 kcal/mol (6068.3715 without restraints) Performing minimization step: 2003. Total energy = 6065.9459 kcal/mol (6064.2017 without restraints) Performing minimization step: 2004. Total energy = 6061.7803 kcal/mol (6060.0364 without restraints) Performing minimization step: 2005. Total energy = 6057.6190 kcal/mol (6055.8754 without restraints) Performing minimization step: 2006. Total energy = 6053.4622 kcal/mol (6051.7189 without restraints) Performing minimization step: 2007. Total energy = 6049.3099 kcal/mol (6047.5670 without restraints) Performing minimization step: 2008. Total energy = 6045.1621 kcal/mol (6043.4195 without restraints) Performing minimization step: 2009. Total energy = 6041.0184 kcal/mol (6039.2761 without restraints) Performing minimization step: 2010. Total energy = 6036.8796 kcal/mol (6035.1376 without restraints) Performing minimization step: 2011. Total energy = 6032.7453 kcal/mol (6031.0036 without restraints) Performing minimization step: 2012. Total energy = 6028.6155 kcal/mol (6026.8741 without restraints) Performing minimization step: 2013. Total energy = 6024.4901 kcal/mol (6022.7491 without restraints) Performing minimization step: 2014. Total energy = 6020.3693 kcal/mol (6018.6285 without restraints) Performing minimization step: 2015. Total energy = 6016.2531 kcal/mol (6014.5127 without restraints) Performing minimization step: 2016. Total energy = 6012.1409 kcal/mol (6010.4008 without restraints) Performing minimization step: 2017. Total energy = 6008.0334 kcal/mol (6006.2937 without restraints) Performing minimization step: 2018. Total energy = 6003.9304 kcal/mol (6002.1910 without restraints) Performing minimization step: 2019. Total energy = 5999.8318 kcal/mol (5998.0927 without restraints) Performing minimization step: 2020. Total energy = 5995.7377 kcal/mol (5993.9988 without restraints) Performing minimization step: 2021. Total energy = 5991.6480 kcal/mol (5989.9094 without restraints) Performing minimization step: 2022. Total energy = 5987.5627 kcal/mol (5985.8245 without restraints) Performing minimization step: 2023. Total energy = 5983.4819 kcal/mol (5981.7440 without restraints) Performing minimization step: 2024. Total energy = 5979.4055 kcal/mol (5977.6679 without restraints) Performing minimization step: 2025. Total energy = 5975.3335 kcal/mol (5973.5962 without restraints) Performing minimization step: 2026. Total energy = 5971.2659 kcal/mol (5969.5290 without restraints) Performing minimization step: 2027. Total energy = 5967.2028 kcal/mol (5965.4661 without restraints) Performing minimization step: 2028. Total energy = 5963.1440 kcal/mol (5961.4077 without restraints) Performing minimization step: 2029. Total energy = 5959.0896 kcal/mol (5957.3534 without restraints) Performing minimization step: 2030. Total energy = 5955.0396 kcal/mol (5953.3038 without restraints) Performing minimization step: 2031. Total energy = 5950.9940 kcal/mol (5949.2586 without restraints) Performing minimization step: 2032. Total energy = 5946.9529 kcal/mol (5945.2177 without restraints) Performing minimization step: 2033. Total energy = 5942.9163 kcal/mol (5941.1815 without restraints) Performing minimization step: 2034. Total energy = 5938.8839 kcal/mol (5937.1494 without restraints) Performing minimization step: 2035. Total energy = 5934.8559 kcal/mol (5933.1217 without restraints) Performing minimization step: 2036. Total energy = 5930.8323 kcal/mol (5929.0984 without restraints) Performing minimization step: 2037. Total energy = 5926.8130 kcal/mol (5925.0794 without restraints) Performing minimization step: 2038. Total energy = 5922.7981 kcal/mol (5921.0648 without restraints) Performing minimization step: 2039. Total energy = 5918.7876 kcal/mol (5917.0546 without restraints) Performing minimization step: 2040. Total energy = 5914.7812 kcal/mol (5913.0485 without restraints) Performing minimization step: 2041. Total energy = 5910.7794 kcal/mol (5909.0470 without restraints) Performing minimization step: 2042. Total energy = 5906.7819 kcal/mol (5905.0498 without restraints) Performing minimization step: 2043. Total energy = 5902.7888 kcal/mol (5901.0570 without restraints) Performing minimization step: 2044. Total energy = 5898.8000 kcal/mol (5897.0685 without restraints) Performing minimization step: 2045. Total energy = 5894.8155 kcal/mol (5893.0843 without restraints) Performing minimization step: 2046. Total energy = 5890.8353 kcal/mol (5889.1044 without restraints) Performing minimization step: 2047. Total energy = 5886.8595 kcal/mol (5885.1289 without restraints) Performing minimization step: 2048. Total energy = 5882.8880 kcal/mol (5881.1577 without restraints) Performing minimization step: 2049. Total energy = 5878.9208 kcal/mol (5877.1907 without restraints) Performing minimization step: 2050. Total energy = 5874.9579 kcal/mol (5873.2281 without restraints) Performing minimization step: 2051. Total energy = 5870.9993 kcal/mol (5869.2698 without restraints) Performing minimization step: 2052. Total energy = 5867.0450 kcal/mol (5865.3158 without restraints) Performing minimization step: 2053. Total energy = 5863.0951 kcal/mol (5861.3662 without restraints) Performing minimization step: 2054. Total energy = 5859.1494 kcal/mol (5857.4208 without restraints) Performing minimization step: 2055. Total energy = 5855.2080 kcal/mol (5853.4796 without restraints) Performing minimization step: 2056. Total energy = 5851.2708 kcal/mol (5849.5428 without restraints) Performing minimization step: 2057. Total energy = 5847.3380 kcal/mol (5845.6103 without restraints) Performing minimization step: 2058. Total energy = 5843.4094 kcal/mol (5841.6820 without restraints) Performing minimization step: 2059. Total energy = 5839.4852 kcal/mol (5837.7580 without restraints) Performing minimization step: 2060. Total energy = 5835.5651 kcal/mol (5833.8382 without restraints) Performing minimization step: 2061. Total energy = 5831.6494 kcal/mol (5829.9228 without restraints) Performing minimization step: 2062. Total energy = 5827.7378 kcal/mol (5826.0115 without restraints) Performing minimization step: 2063. Total energy = 5823.8306 kcal/mol (5822.1045 without restraints) Performing minimization step: 2064. Total energy = 5819.9276 kcal/mol (5818.2018 without restraints) Performing minimization step: 2065. Total energy = 5816.0288 kcal/mol (5814.3033 without restraints) Performing minimization step: 2066. Total energy = 5812.1342 kcal/mol (5810.4091 without restraints) Performing minimization step: 2067. Total energy = 5808.2440 kcal/mol (5806.5191 without restraints) Performing minimization step: 2068. Total energy = 5804.3579 kcal/mol (5802.6333 without restraints) Performing minimization step: 2069. Total energy = 5800.4761 kcal/mol (5798.7517 without restraints) Performing minimization step: 2070. Total energy = 5796.5983 kcal/mol (5794.8742 without restraints) Performing minimization step: 2071. Total energy = 5792.7251 kcal/mol (5791.0013 without restraints) Performing minimization step: 2072. Total energy = 5788.8559 kcal/mol (5787.1324 without restraints) Performing minimization step: 2073. Total energy = 5784.9909 kcal/mol (5783.2677 without restraints) Performing minimization step: 2074. Total energy = 5781.1301 kcal/mol (5779.4072 without restraints) Performing minimization step: 2075. Total energy = 5777.2735 kcal/mol (5775.5509 without restraints) Performing minimization step: 2076. Total energy = 5773.4212 kcal/mol (5771.6987 without restraints) Performing minimization step: 2077. Total energy = 5769.5730 kcal/mol (5767.8508 without restraints) Performing minimization step: 2078. Total energy = 5765.7289 kcal/mol (5764.0071 without restraints) Performing minimization step: 2079. Total energy = 5761.8891 kcal/mol (5760.1675 without restraints) Performing minimization step: 2080. Total energy = 5758.0534 kcal/mol (5756.3321 without restraints) Performing minimization step: 2081. Total energy = 5754.2220 kcal/mol (5752.5009 without restraints) Performing minimization step: 2082. Total energy = 5750.3947 kcal/mol (5748.6739 without restraints) Performing minimization step: 2083. Total energy = 5746.5715 kcal/mol (5744.8510 without restraints) Performing minimization step: 2084. Total energy = 5742.7525 kcal/mol (5741.0323 without restraints) Performing minimization step: 2085. Total energy = 5738.9377 kcal/mol (5737.2177 without restraints) Performing minimization step: 2086. Total energy = 5735.1270 kcal/mol (5733.4073 without restraints) Performing minimization step: 2087. Total energy = 5731.3205 kcal/mol (5729.6010 without restraints) Performing minimization step: 2088. Total energy = 5727.5181 kcal/mol (5725.7989 without restraints) Performing minimization step: 2089. Total energy = 5723.7198 kcal/mol (5722.0009 without restraints) Performing minimization step: 2090. Total energy = 5719.9255 kcal/mol (5718.2069 without restraints) Performing minimization step: 2091. Total energy = 5716.1355 kcal/mol (5714.4171 without restraints) Performing minimization step: 2092. Total energy = 5712.3496 kcal/mol (5710.6315 without restraints) Performing minimization step: 2093. Total energy = 5708.5679 kcal/mol (5706.8501 without restraints) Performing minimization step: 2094. Total energy = 5704.7903 kcal/mol (5703.0727 without restraints) Performing minimization step: 2095. Total energy = 5701.0168 kcal/mol (5699.2994 without restraints) Performing minimization step: 2096. Total energy = 5697.2474 kcal/mol (5695.5303 without restraints) Performing minimization step: 2097. Total energy = 5693.4820 kcal/mol (5691.7652 without restraints) Performing minimization step: 2098. Total energy = 5689.7207 kcal/mol (5688.0041 without restraints) Performing minimization step: 2099. Total energy = 5685.9636 kcal/mol (5684.2473 without restraints) Performing minimization step: 2100. Total energy = 5682.2105 kcal/mol (5680.4945 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 2101. Total energy = 5678.4616 kcal/mol (5676.7458 without restraints) Performing minimization step: 2102. Total energy = 5674.7168 kcal/mol (5673.0012 without restraints) Performing minimization step: 2103. Total energy = 5670.9760 kcal/mol (5669.2607 without restraints) Performing minimization step: 2104. Total energy = 5667.2393 kcal/mol (5665.5243 without restraints) Performing minimization step: 2105. Total energy = 5663.5067 kcal/mol (5661.7919 without restraints) Performing minimization step: 2106. Total energy = 5659.7781 kcal/mol (5658.0636 without restraints) Performing minimization step: 2107. Total energy = 5656.0536 kcal/mol (5654.3394 without restraints) Performing minimization step: 2108. Total energy = 5652.3332 kcal/mol (5650.6192 without restraints) Performing minimization step: 2109. Total energy = 5648.6168 kcal/mol (5646.9031 without restraints) Performing minimization step: 2110. Total energy = 5644.9045 kcal/mol (5643.1910 without restraints) Performing minimization step: 2111. Total energy = 5641.1961 kcal/mol (5639.4829 without restraints) Performing minimization step: 2112. Total energy = 5637.4919 kcal/mol (5635.7789 without restraints) Performing minimization step: 2113. Total energy = 5633.7917 kcal/mol (5632.0789 without restraints) Performing minimization step: 2114. Total energy = 5630.0955 kcal/mol (5628.3830 without restraints) Performing minimization step: 2115. Total energy = 5626.4033 kcal/mol (5624.6911 without restraints) Performing minimization step: 2116. Total energy = 5622.7152 kcal/mol (5621.0032 without restraints) Performing minimization step: 2117. Total energy = 5619.0310 kcal/mol (5617.3193 without restraints) Performing minimization step: 2118. Total energy = 5615.3509 kcal/mol (5613.6394 without restraints) Performing minimization step: 2119. Total energy = 5611.6748 kcal/mol (5609.9636 without restraints) Performing minimization step: 2120. Total energy = 5608.0027 kcal/mol (5606.2917 without restraints) Performing minimization step: 2121. Total energy = 5604.3346 kcal/mol (5602.6239 without restraints) Performing minimization step: 2122. Total energy = 5600.6706 kcal/mol (5598.9602 without restraints) Performing minimization step: 2123. Total energy = 5597.0106 kcal/mol (5595.3004 without restraints) Performing minimization step: 2124. Total energy = 5593.3545 kcal/mol (5591.6445 without restraints) Performing minimization step: 2125. Total energy = 5589.7024 kcal/mol (5587.9926 without restraints) Performing minimization step: 2126. Total energy = 5586.0540 kcal/mol (5584.3445 without restraints) Performing minimization step: 2127. Total energy = 5582.4098 kcal/mol (5580.7005 without restraints) Performing minimization step: 2128. Total energy = 5578.7696 kcal/mol (5577.0605 without restraints) Performing minimization step: 2129. Total energy = 5575.1333 kcal/mol (5573.4245 without restraints) Performing minimization step: 2130. Total energy = 5571.5011 kcal/mol (5569.7925 without restraints) Performing minimization step: 2131. Total energy = 5567.8728 kcal/mol (5566.1644 without restraints) Performing minimization step: 2132. Total energy = 5564.2484 kcal/mol (5562.5403 without restraints) Performing minimization step: 2133. Total energy = 5560.6282 kcal/mol (5558.9204 without restraints) Performing minimization step: 2134. Total energy = 5557.0117 kcal/mol (5555.3041 without restraints) Performing minimization step: 2135. Total energy = 5553.3992 kcal/mol (5551.6918 without restraints) Performing minimization step: 2136. Total energy = 5549.7906 kcal/mol (5548.0835 without restraints) Performing minimization step: 2137. Total energy = 5546.1858 kcal/mol (5544.4789 without restraints) Performing minimization step: 2138. Total energy = 5542.5851 kcal/mol (5540.8784 without restraints) Performing minimization step: 2139. Total energy = 5538.9884 kcal/mol (5537.2821 without restraints) Performing minimization step: 2140. Total energy = 5535.3956 kcal/mol (5533.6894 without restraints) Performing minimization step: 2141. Total energy = 5531.8067 kcal/mol (5530.1007 without restraints) Performing minimization step: 2142. Total energy = 5528.2217 kcal/mol (5526.5159 without restraints) Performing minimization step: 2143. Total energy = 5524.6405 kcal/mol (5522.9350 without restraints) Performing minimization step: 2144. Total energy = 5521.0633 kcal/mol (5519.3580 without restraints) Performing minimization step: 2145. Total energy = 5517.4900 kcal/mol (5515.7849 without restraints) Performing minimization step: 2146. Total energy = 5513.9205 kcal/mol (5512.2157 without restraints) Performing minimization step: 2147. Total energy = 5510.3550 kcal/mol (5508.6504 without restraints) Performing minimization step: 2148. Total energy = 5506.7933 kcal/mol (5505.0890 without restraints) Performing minimization step: 2149. Total energy = 5503.2354 kcal/mol (5501.5312 without restraints) Performing minimization step: 2150. Total energy = 5499.6815 kcal/mol (5497.9775 without restraints) Performing minimization step: 2151. Total energy = 5496.1314 kcal/mol (5494.4277 without restraints) Performing minimization step: 2152. Total energy = 5492.5853 kcal/mol (5490.8818 without restraints) Performing minimization step: 2153. Total energy = 5489.0430 kcal/mol (5487.3398 without restraints) Performing minimization step: 2154. Total energy = 5485.5046 kcal/mol (5483.8016 without restraints) Performing minimization step: 2155. Total energy = 5481.9700 kcal/mol (5480.2672 without restraints) Performing minimization step: 2156. Total energy = 5478.4393 kcal/mol (5476.7368 without restraints) Performing minimization step: 2157. Total energy = 5474.9125 kcal/mol (5473.2101 without restraints) Performing minimization step: 2158. Total energy = 5471.3895 kcal/mol (5469.6873 without restraints) Performing minimization step: 2159. Total energy = 5467.8703 kcal/mol (5466.1684 without restraints) Performing minimization step: 2160. Total energy = 5464.3550 kcal/mol (5462.6533 without restraints) Performing minimization step: 2161. Total energy = 5460.8435 kcal/mol (5459.1420 without restraints) Performing minimization step: 2162. Total energy = 5457.3358 kcal/mol (5455.6346 without restraints) Performing minimization step: 2163. Total energy = 5453.8320 kcal/mol (5452.1309 without restraints) Performing minimization step: 2164. Total energy = 5450.3321 kcal/mol (5448.6313 without restraints) Performing minimization step: 2165. Total energy = 5446.8359 kcal/mol (5445.1353 without restraints) Performing minimization step: 2166. Total energy = 5443.3433 kcal/mol (5441.6429 without restraints) Performing minimization step: 2167. Total energy = 5439.8547 kcal/mol (5438.1546 without restraints) Performing minimization step: 2168. Total energy = 5436.3700 kcal/mol (5434.6700 without restraints) Performing minimization step: 2169. Total energy = 5432.8890 kcal/mol (5431.1893 without restraints) Performing minimization step: 2170. Total energy = 5429.4118 kcal/mol (5427.7123 without restraints) Performing minimization step: 2171. Total energy = 5425.9384 kcal/mol (5424.2391 without restraints) Performing minimization step: 2172. Total energy = 5422.4688 kcal/mol (5420.7697 without restraints) Performing minimization step: 2173. Total energy = 5419.0030 kcal/mol (5417.3041 without restraints) Performing minimization step: 2174. Total energy = 5415.5410 kcal/mol (5413.8423 without restraints) Performing minimization step: 2175. Total energy = 5412.0827 kcal/mol (5410.3843 without restraints) Performing minimization step: 2176. Total energy = 5408.6283 kcal/mol (5406.9300 without restraints) Performing minimization step: 2177. Total energy = 5405.1776 kcal/mol (5403.4795 without restraints) Performing minimization step: 2178. Total energy = 5401.7306 kcal/mol (5400.0328 without restraints) Performing minimization step: 2179. Total energy = 5398.2874 kcal/mol (5396.5898 without restraints) Performing minimization step: 2180. Total energy = 5394.8480 kcal/mol (5393.1506 without restraints) Performing minimization step: 2181. Total energy = 5391.4123 kcal/mol (5389.7151 without restraints) Performing minimization step: 2182. Total energy = 5387.9807 kcal/mol (5386.2838 without restraints) Performing minimization step: 2183. Total energy = 5384.5526 kcal/mol (5382.8558 without restraints) Performing minimization step: 2184. Total energy = 5381.1281 kcal/mol (5379.4315 without restraints) Performing minimization step: 2185. Total energy = 5377.7074 kcal/mol (5376.0110 without restraints) Performing minimization step: 2186. Total energy = 5374.2906 kcal/mol (5372.5946 without restraints) Performing minimization step: 2187. Total energy = 5370.8775 kcal/mol (5369.1815 without restraints) Performing minimization step: 2188. Total energy = 5367.4680 kcal/mol (5365.7722 without restraints) Performing minimization step: 2189. Total energy = 5364.0622 kcal/mol (5362.3666 without restraints) Performing minimization step: 2190. Total energy = 5360.6601 kcal/mol (5358.9647 without restraints) Performing minimization step: 2191. Total energy = 5357.2617 kcal/mol (5355.5665 without restraints) Performing minimization step: 2192. Total energy = 5353.8671 kcal/mol (5352.1722 without restraints) Performing minimization step: 2193. Total energy = 5350.4762 kcal/mol (5348.7814 without restraints) Performing minimization step: 2194. Total energy = 5347.0888 kcal/mol (5345.3942 without restraints) Performing minimization step: 2195. Total energy = 5343.7051 kcal/mol (5342.0108 without restraints) Performing minimization step: 2196. Total energy = 5340.3252 kcal/mol (5338.6311 without restraints) Performing minimization step: 2197. Total energy = 5336.9490 kcal/mol (5335.2550 without restraints) Performing minimization step: 2198. Total energy = 5333.5765 kcal/mol (5331.8827 without restraints) Performing minimization step: 2199. Total energy = 5330.2076 kcal/mol (5328.5140 without restraints) Performing minimization step: 2200. Total energy = 5326.8424 kcal/mol (5325.1490 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 2201. Total energy = 5323.4809 kcal/mol (5321.7877 without restraints) Performing minimization step: 2202. Total energy = 5320.1231 kcal/mol (5318.4301 without restraints) Performing minimization step: 2203. Total energy = 5316.7689 kcal/mol (5315.0761 without restraints) Performing minimization step: 2204. Total energy = 5313.4186 kcal/mol (5311.7259 without restraints) Performing minimization step: 2205. Total energy = 5310.0717 kcal/mol (5308.3793 without restraints) Performing minimization step: 2206. Total energy = 5306.7285 kcal/mol (5305.0362 without restraints) Performing minimization step: 2207. Total energy = 5303.3889 kcal/mol (5301.6968 without restraints) Performing minimization step: 2208. Total energy = 5300.0530 kcal/mol (5298.3612 without restraints) Performing minimization step: 2209. Total energy = 5296.7207 kcal/mol (5295.0290 without restraints) Performing minimization step: 2210. Total energy = 5293.3922 kcal/mol (5291.7008 without restraints) Performing minimization step: 2211. Total energy = 5290.0672 kcal/mol (5288.3759 without restraints) Performing minimization step: 2212. Total energy = 5286.7460 kcal/mol (5285.0549 without restraints) Performing minimization step: 2213. Total energy = 5283.4282 kcal/mol (5281.7373 without restraints) Performing minimization step: 2214. Total energy = 5280.1141 kcal/mol (5278.4233 without restraints) Performing minimization step: 2215. Total energy = 5276.8035 kcal/mol (5275.1130 without restraints) Performing minimization step: 2216. Total energy = 5273.4966 kcal/mol (5271.8062 without restraints) Performing minimization step: 2217. Total energy = 5270.1933 kcal/mol (5268.5031 without restraints) Performing minimization step: 2218. Total energy = 5266.8935 kcal/mol (5265.2035 without restraints) Performing minimization step: 2219. Total energy = 5263.5974 kcal/mol (5261.9076 without restraints) Performing minimization step: 2220. Total energy = 5260.3048 kcal/mol (5258.6152 without restraints) Performing minimization step: 2221. Total energy = 5257.0159 kcal/mol (5255.3264 without restraints) Performing minimization step: 2222. Total energy = 5253.7305 kcal/mol (5252.0412 without restraints) Performing minimization step: 2223. Total energy = 5250.4490 kcal/mol (5248.7599 without restraints) Performing minimization step: 2224. Total energy = 5247.1708 kcal/mol (5245.4819 without restraints) Performing minimization step: 2225. Total energy = 5243.8961 kcal/mol (5242.2074 without restraints) Performing minimization step: 2226. Total energy = 5240.6251 kcal/mol (5238.9365 without restraints) Performing minimization step: 2227. Total energy = 5237.3576 kcal/mol (5235.6692 without restraints) Performing minimization step: 2228. Total energy = 5234.0936 kcal/mol (5232.4054 without restraints) Performing minimization step: 2229. Total energy = 5230.8332 kcal/mol (5229.1452 without restraints) Performing minimization step: 2230. Total energy = 5227.5764 kcal/mol (5225.8886 without restraints) Performing minimization step: 2231. Total energy = 5224.3232 kcal/mol (5222.6355 without restraints) Performing minimization step: 2232. Total energy = 5221.0734 kcal/mol (5219.3860 without restraints) Performing minimization step: 2233. Total energy = 5217.8272 kcal/mol (5216.1399 without restraints) Performing minimization step: 2234. Total energy = 5214.5846 kcal/mol (5212.8975 without restraints) Performing minimization step: 2235. Total energy = 5211.3455 kcal/mol (5209.6585 without restraints) Performing minimization step: 2236. Total energy = 5208.1099 kcal/mol (5206.4231 without restraints) Performing minimization step: 2237. Total energy = 5204.8778 kcal/mol (5203.1912 without restraints) Performing minimization step: 2238. Total energy = 5201.6492 kcal/mol (5199.9628 without restraints) Performing minimization step: 2239. Total energy = 5198.4242 kcal/mol (5196.7379 without restraints) Performing minimization step: 2240. Total energy = 5195.2027 kcal/mol (5193.5166 without restraints) Performing minimization step: 2241. Total energy = 5191.9845 kcal/mol (5190.2986 without restraints) Performing minimization step: 2242. Total energy = 5188.7700 kcal/mol (5187.0842 without restraints) Performing minimization step: 2243. Total energy = 5185.5592 kcal/mol (5183.8736 without restraints) Performing minimization step: 2244. Total energy = 5182.3517 kcal/mol (5180.6663 without restraints) Performing minimization step: 2245. Total energy = 5179.1477 kcal/mol (5177.4624 without restraints) Performing minimization step: 2246. Total energy = 5175.9472 kcal/mol (5174.2621 without restraints) Performing minimization step: 2247. Total energy = 5172.7501 kcal/mol (5171.0652 without restraints) Performing minimization step: 2248. Total energy = 5169.5566 kcal/mol (5167.8718 without restraints) Performing minimization step: 2249. Total energy = 5166.3665 kcal/mol (5164.6819 without restraints) Performing minimization step: 2250. Total energy = 5163.1799 kcal/mol (5161.4955 without restraints) Performing minimization step: 2251. Total energy = 5159.9968 kcal/mol (5158.3125 without restraints) Performing minimization step: 2252. Total energy = 5156.8170 kcal/mol (5155.1330 without restraints) Performing minimization step: 2253. Total energy = 5153.6408 kcal/mol (5151.9569 without restraints) Performing minimization step: 2254. Total energy = 5150.4680 kcal/mol (5148.7843 without restraints) Performing minimization step: 2255. Total energy = 5147.2987 kcal/mol (5145.6151 without restraints) Performing minimization step: 2256. Total energy = 5144.1331 kcal/mol (5142.4496 without restraints) Performing minimization step: 2257. Total energy = 5140.9707 kcal/mol (5139.2874 without restraints) Performing minimization step: 2258. Total energy = 5137.8117 kcal/mol (5136.1286 without restraints) Performing minimization step: 2259. Total energy = 5134.6562 kcal/mol (5132.9732 without restraints) Performing minimization step: 2260. Total energy = 5131.5041 kcal/mol (5129.8213 without restraints) Performing minimization step: 2261. Total energy = 5128.3554 kcal/mol (5126.6728 without restraints) Performing minimization step: 2262. Total energy = 5125.2102 kcal/mol (5123.5277 without restraints) Performing minimization step: 2263. Total energy = 5122.0684 kcal/mol (5120.3861 without restraints) Performing minimization step: 2264. Total energy = 5118.9300 kcal/mol (5117.2478 without restraints) Performing minimization step: 2265. Total energy = 5115.7950 kcal/mol (5114.1130 without restraints) Performing minimization step: 2266. Total energy = 5112.6635 kcal/mol (5110.9816 without restraints) Performing minimization step: 2267. Total energy = 5109.5353 kcal/mol (5107.8536 without restraints) Performing minimization step: 2268. Total energy = 5106.4105 kcal/mol (5104.7290 without restraints) Performing minimization step: 2269. Total energy = 5103.2892 kcal/mol (5101.6078 without restraints) Performing minimization step: 2270. Total energy = 5100.1714 kcal/mol (5098.4901 without restraints) Performing minimization step: 2271. Total energy = 5097.0568 kcal/mol (5095.3757 without restraints) Performing minimization step: 2272. Total energy = 5093.9456 kcal/mol (5092.2647 without restraints) Performing minimization step: 2273. Total energy = 5090.8378 kcal/mol (5089.1570 without restraints) Performing minimization step: 2274. Total energy = 5087.7336 kcal/mol (5086.0530 without restraints) Performing minimization step: 2275. Total energy = 5084.6326 kcal/mol (5082.9521 without restraints) Performing minimization step: 2276. Total energy = 5081.5350 kcal/mol (5079.8546 without restraints) Performing minimization step: 2277. Total energy = 5078.4406 kcal/mol (5076.7605 without restraints) Performing minimization step: 2278. Total energy = 5075.3495 kcal/mol (5073.6694 without restraints) Performing minimization step: 2279. Total energy = 5072.2619 kcal/mol (5070.5820 without restraints) Performing minimization step: 2280. Total energy = 5069.1776 kcal/mol (5067.4979 without restraints) Performing minimization step: 2281. Total energy = 5066.0967 kcal/mol (5064.4171 without restraints) Performing minimization step: 2282. Total energy = 5063.0192 kcal/mol (5061.3397 without restraints) Performing minimization step: 2283. Total energy = 5059.9450 kcal/mol (5058.2657 without restraints) Performing minimization step: 2284. Total energy = 5056.8741 kcal/mol (5055.1949 without restraints) Performing minimization step: 2285. Total energy = 5053.8066 kcal/mol (5052.1276 without restraints) Performing minimization step: 2286. Total energy = 5050.7425 kcal/mol (5049.0636 without restraints) Performing minimization step: 2287. Total energy = 5047.6816 kcal/mol (5046.0029 without restraints) Performing minimization step: 2288. Total energy = 5044.6240 kcal/mol (5042.9455 without restraints) Performing minimization step: 2289. Total energy = 5041.5699 kcal/mol (5039.8914 without restraints) Performing minimization step: 2290. Total energy = 5038.5189 kcal/mol (5036.8406 without restraints) Performing minimization step: 2291. Total energy = 5035.4713 kcal/mol (5033.7932 without restraints) Performing minimization step: 2292. Total energy = 5032.4271 kcal/mol (5030.7490 without restraints) Performing minimization step: 2293. Total energy = 5029.3861 kcal/mol (5027.7082 without restraints) Performing minimization step: 2294. Total energy = 5026.3484 kcal/mol (5024.6706 without restraints) Performing minimization step: 2295. Total energy = 5023.3140 kcal/mol (5021.6364 without restraints) Performing minimization step: 2296. Total energy = 5020.2829 kcal/mol (5018.6054 without restraints) Performing minimization step: 2297. Total energy = 5017.2553 kcal/mol (5015.5780 without restraints) Performing minimization step: 2298. Total energy = 5014.2308 kcal/mol (5012.5536 without restraints) Performing minimization step: 2299. Total energy = 5011.2095 kcal/mol (5009.5325 without restraints) Performing minimization step: 2300. Total energy = 5008.1916 kcal/mol (5006.5147 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 2301. Total energy = 5005.1769 kcal/mol (5003.5001 without restraints) Performing minimization step: 2302. Total energy = 5002.1655 kcal/mol (5000.4888 without restraints) Performing minimization step: 2303. Total energy = 4999.1573 kcal/mol (4997.4808 without restraints) Performing minimization step: 2304. Total energy = 4996.1524 kcal/mol (4994.4760 without restraints) Performing minimization step: 2305. Total energy = 4993.1508 kcal/mol (4991.4745 without restraints) Performing minimization step: 2306. Total energy = 4990.1524 kcal/mol (4988.4763 without restraints) Performing minimization step: 2307. Total energy = 4987.1575 kcal/mol (4985.4815 without restraints) Performing minimization step: 2308. Total energy = 4984.1654 kcal/mol (4982.4895 without restraints) Performing minimization step: 2309. Total energy = 4981.1769 kcal/mol (4979.5012 without restraints) Performing minimization step: 2310. Total energy = 4978.1915 kcal/mol (4976.5159 without restraints) Performing minimization step: 2311. Total energy = 4975.2093 kcal/mol (4973.5339 without restraints) Performing minimization step: 2312. Total energy = 4972.2304 kcal/mol (4970.5551 without restraints) Performing minimization step: 2313. Total energy = 4969.2547 kcal/mol (4967.5795 without restraints) Performing minimization step: 2314. Total energy = 4966.2822 kcal/mol (4964.6071 without restraints) Performing minimization step: 2315. Total energy = 4963.3129 kcal/mol (4961.6379 without restraints) Performing minimization step: 2316. Total energy = 4960.3470 kcal/mol (4958.6722 without restraints) Performing minimization step: 2317. Total energy = 4957.3842 kcal/mol (4955.7095 without restraints) Performing minimization step: 2318. Total energy = 4954.4245 kcal/mol (4952.7499 without restraints) Performing minimization step: 2319. Total energy = 4951.4681 kcal/mol (4949.7936 without restraints) Performing minimization step: 2320. Total energy = 4948.5148 kcal/mol (4946.8405 without restraints) Performing minimization step: 2321. Total energy = 4945.5646 kcal/mol (4943.8903 without restraints) Performing minimization step: 2322. Total energy = 4942.6179 kcal/mol (4940.9438 without restraints) Performing minimization step: 2323. Total energy = 4939.6742 kcal/mol (4938.0002 without restraints) Performing minimization step: 2324. Total energy = 4936.7337 kcal/mol (4935.0599 without restraints) Performing minimization step: 2325. Total energy = 4933.7964 kcal/mol (4932.1227 without restraints) Performing minimization step: 2326. Total energy = 4930.8623 kcal/mol (4929.1887 without restraints) Performing minimization step: 2327. Total energy = 4927.9313 kcal/mol (4926.2578 without restraints) Performing minimization step: 2328. Total energy = 4925.0035 kcal/mol (4923.3302 without restraints) Performing minimization step: 2329. Total energy = 4922.0789 kcal/mol (4920.4056 without restraints) Performing minimization step: 2330. Total energy = 4919.1574 kcal/mol (4917.4843 without restraints) Performing minimization step: 2331. Total energy = 4916.2391 kcal/mol (4914.5661 without restraints) Performing minimization step: 2332. Total energy = 4913.3237 kcal/mol (4911.6508 without restraints) Performing minimization step: 2333. Total energy = 4910.4117 kcal/mol (4908.7389 without restraints) Performing minimization step: 2334. Total energy = 4907.5030 kcal/mol (4905.8304 without restraints) Performing minimization step: 2335. Total energy = 4904.5973 kcal/mol (4902.9247 without restraints) Performing minimization step: 2336. Total energy = 4901.6947 kcal/mol (4900.0223 without restraints) Performing minimization step: 2337. Total energy = 4898.7953 kcal/mol (4897.1230 without restraints) Performing minimization step: 2338. Total energy = 4895.8990 kcal/mol (4894.2268 without restraints) Performing minimization step: 2339. Total energy = 4893.0058 kcal/mol (4891.3337 without restraints) Performing minimization step: 2340. Total energy = 4890.1157 kcal/mol (4888.4437 without restraints) Performing minimization step: 2341. Total energy = 4887.2288 kcal/mol (4885.5569 without restraints) Performing minimization step: 2342. Total energy = 4884.3449 kcal/mol (4882.6732 without restraints) Performing minimization step: 2343. Total energy = 4881.4642 kcal/mol (4879.7925 without restraints) Performing minimization step: 2344. Total energy = 4878.5865 kcal/mol (4876.9150 without restraints) Performing minimization step: 2345. Total energy = 4875.7120 kcal/mol (4874.0406 without restraints) Performing minimization step: 2346. Total energy = 4872.8406 kcal/mol (4871.1693 without restraints) Performing minimization step: 2347. Total energy = 4869.9722 kcal/mol (4868.3010 without restraints) Performing minimization step: 2348. Total energy = 4867.1070 kcal/mol (4865.4359 without restraints) Performing minimization step: 2349. Total energy = 4864.2448 kcal/mol (4862.5739 without restraints) Performing minimization step: 2350. Total energy = 4861.3858 kcal/mol (4859.7149 without restraints) Performing minimization step: 2351. Total energy = 4858.5298 kcal/mol (4856.8590 without restraints) Performing minimization step: 2352. Total energy = 4855.6769 kcal/mol (4854.0062 without restraints) Performing minimization step: 2353. Total energy = 4852.8270 kcal/mol (4851.1565 without restraints) Performing minimization step: 2354. Total energy = 4849.9802 kcal/mol (4848.3098 without restraints) Performing minimization step: 2355. Total energy = 4847.1365 kcal/mol (4845.4662 without restraints) Performing minimization step: 2356. Total energy = 4844.2959 kcal/mol (4842.6257 without restraints) Performing minimization step: 2357. Total energy = 4841.4583 kcal/mol (4839.7882 without restraints) Performing minimization step: 2358. Total energy = 4838.6240 kcal/mol (4836.9539 without restraints) Performing minimization step: 2359. Total energy = 4835.7925 kcal/mol (4834.1225 without restraints) Performing minimization step: 2360. Total energy = 4832.9641 kcal/mol (4831.2942 without restraints) Performing minimization step: 2361. Total energy = 4830.1387 kcal/mol (4828.4689 without restraints) Performing minimization step: 2362. Total energy = 4827.3163 kcal/mol (4825.6466 without restraints) Performing minimization step: 2363. Total energy = 4824.4969 kcal/mol (4822.8274 without restraints) Performing minimization step: 2364. Total energy = 4821.6806 kcal/mol (4820.0112 without restraints) Performing minimization step: 2365. Total energy = 4818.8674 kcal/mol (4817.1981 without restraints) Performing minimization step: 2366. Total energy = 4816.0571 kcal/mol (4814.3879 without restraints) Performing minimization step: 2367. Total energy = 4813.2499 kcal/mol (4811.5807 without restraints) Performing minimization step: 2368. Total energy = 4810.4457 kcal/mol (4808.7766 without restraints) Performing minimization step: 2369. Total energy = 4807.6444 kcal/mol (4805.9755 without restraints) Performing minimization step: 2370. Total energy = 4804.8459 kcal/mol (4803.1770 without restraints) Performing minimization step: 2371. Total energy = 4802.0507 kcal/mol (4800.3819 without restraints) Performing minimization step: 2372. Total energy = 4799.2584 kcal/mol (4797.5898 without restraints) Performing minimization step: 2373. Total energy = 4796.4692 kcal/mol (4794.8007 without restraints) Performing minimization step: 2374. Total energy = 4793.6830 kcal/mol (4792.0145 without restraints) Performing minimization step: 2375. Total energy = 4790.8998 kcal/mol (4789.2314 without restraints) Performing minimization step: 2376. Total energy = 4788.1195 kcal/mol (4786.4512 without restraints) Performing minimization step: 2377. Total energy = 4785.3422 kcal/mol (4783.6741 without restraints) Performing minimization step: 2378. Total energy = 4782.5680 kcal/mol (4780.8999 without restraints) Performing minimization step: 2379. Total energy = 4779.7966 kcal/mol (4778.1286 without restraints) Performing minimization step: 2380. Total energy = 4777.0283 kcal/mol (4775.3604 without restraints) Performing minimization step: 2381. Total energy = 4774.2629 kcal/mol (4772.5951 without restraints) Performing minimization step: 2382. Total energy = 4771.5005 kcal/mol (4769.8327 without restraints) Performing minimization step: 2383. Total energy = 4768.7410 kcal/mol (4767.0733 without restraints) Performing minimization step: 2384. Total energy = 4765.9845 kcal/mol (4764.3169 without restraints) Performing minimization step: 2385. Total energy = 4763.2309 kcal/mol (4761.5634 without restraints) Performing minimization step: 2386. Total energy = 4760.4803 kcal/mol (4758.8129 without restraints) Performing minimization step: 2387. Total energy = 4757.7326 kcal/mol (4756.0653 without restraints) Performing minimization step: 2388. Total energy = 4754.9879 kcal/mol (4753.3207 without restraints) Performing minimization step: 2389. Total energy = 4752.2461 kcal/mol (4750.5790 without restraints) Performing minimization step: 2390. Total energy = 4749.5073 kcal/mol (4747.8402 without restraints) Performing minimization step: 2391. Total energy = 4746.7713 kcal/mol (4745.1043 without restraints) Performing minimization step: 2392. Total energy = 4744.0383 kcal/mol (4742.3714 without restraints) Performing minimization step: 2393. Total energy = 4741.3082 kcal/mol (4739.6414 without restraints) Performing minimization step: 2394. Total energy = 4738.5814 kcal/mol (4736.9147 without restraints) Performing minimization step: 2395. Total energy = 4735.8571 kcal/mol (4734.1905 without restraints) Performing minimization step: 2396. Total energy = 4733.1357 kcal/mol (4731.4692 without restraints) Performing minimization step: 2397. Total energy = 4730.4173 kcal/mol (4728.7508 without restraints) Performing minimization step: 2398. Total energy = 4727.7017 kcal/mol (4726.0353 without restraints) Performing minimization step: 2399. Total energy = 4724.9891 kcal/mol (4723.3229 without restraints) Performing minimization step: 2400. Total energy = 4722.2795 kcal/mol (4720.6132 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 2401. Total energy = 4719.5726 kcal/mol (4717.9064 without restraints) Performing minimization step: 2402. Total energy = 4716.8686 kcal/mol (4715.2025 without restraints) Performing minimization step: 2403. Total energy = 4714.1674 kcal/mol (4712.5014 without restraints) Performing minimization step: 2404. Total energy = 4711.4692 kcal/mol (4709.8033 without restraints) Performing minimization step: 2405. Total energy = 4708.7739 kcal/mol (4707.1080 without restraints) Performing minimization step: 2406. Total energy = 4706.0814 kcal/mol (4704.4156 without restraints) Performing minimization step: 2407. Total energy = 4703.3917 kcal/mol (4701.7260 without restraints) Performing minimization step: 2408. Total energy = 4700.7050 kcal/mol (4699.0394 without restraints) Performing minimization step: 2409. Total energy = 4698.0211 kcal/mol (4696.3555 without restraints) Performing minimization step: 2410. Total energy = 4695.3402 kcal/mol (4693.6748 without restraints) Performing minimization step: 2411. Total energy = 4692.6620 kcal/mol (4690.9966 without restraints) Performing minimization step: 2412. Total energy = 4689.9867 kcal/mol (4688.3214 without restraints) Performing minimization step: 2413. Total energy = 4687.3142 kcal/mol (4685.6489 without restraints) Performing minimization step: 2414. Total energy = 4684.6445 kcal/mol (4682.9793 without restraints) Performing minimization step: 2415. Total energy = 4681.9777 kcal/mol (4680.3126 without restraints) Performing minimization step: 2416. Total energy = 4679.3137 kcal/mol (4677.6487 without restraints) Performing minimization step: 2417. Total energy = 4676.6525 kcal/mol (4674.9876 without restraints) Performing minimization step: 2418. Total energy = 4673.9942 kcal/mol (4672.3293 without restraints) Performing minimization step: 2419. Total energy = 4671.3387 kcal/mol (4669.6739 without restraints) Performing minimization step: 2420. Total energy = 4668.6860 kcal/mol (4667.0212 without restraints) Performing minimization step: 2421. Total energy = 4666.0361 kcal/mol (4664.3714 without restraints) Performing minimization step: 2422. Total energy = 4663.3890 kcal/mol (4661.7242 without restraints) Performing minimization step: 2423. Total energy = 4660.7446 kcal/mol (4659.0800 without restraints) Performing minimization step: 2424. Total energy = 4658.1031 kcal/mol (4656.4386 without restraints) Performing minimization step: 2425. Total energy = 4655.4645 kcal/mol (4653.8000 without restraints) Performing minimization step: 2426. Total energy = 4652.8286 kcal/mol (4651.1642 without restraints) Performing minimization step: 2427. Total energy = 4650.1955 kcal/mol (4648.5312 without restraints) Performing minimization step: 2428. Total energy = 4647.5652 kcal/mol (4645.9010 without restraints) Performing minimization step: 2429. Total energy = 4644.9377 kcal/mol (4643.2735 without restraints) Performing minimization step: 2430. Total energy = 4642.3130 kcal/mol (4640.6489 without restraints) Performing minimization step: 2431. Total energy = 4639.6910 kcal/mol (4638.0270 without restraints) Performing minimization step: 2432. Total energy = 4637.0719 kcal/mol (4635.4079 without restraints) Performing minimization step: 2433. Total energy = 4634.4555 kcal/mol (4632.7916 without restraints) Performing minimization step: 2434. Total energy = 4631.8418 kcal/mol (4630.1780 without restraints) Performing minimization step: 2435. Total energy = 4629.2310 kcal/mol (4627.5672 without restraints) Performing minimization step: 2436. Total energy = 4626.6228 kcal/mol (4624.9591 without restraints) Performing minimization step: 2437. Total energy = 4624.0177 kcal/mol (4622.3540 without restraints) Performing minimization step: 2438. Total energy = 4621.4151 kcal/mol (4619.7514 without restraints) Performing minimization step: 2439. Total energy = 4618.8152 kcal/mol (4617.1516 without restraints) Performing minimization step: 2440. Total energy = 4616.2181 kcal/mol (4614.5546 without restraints) Performing minimization step: 2441. Total energy = 4613.6236 kcal/mol (4611.9602 without restraints) Performing minimization step: 2442. Total energy = 4611.0320 kcal/mol (4609.3686 without restraints) Performing minimization step: 2443. Total energy = 4608.4431 kcal/mol (4606.7797 without restraints) Performing minimization step: 2444. Total energy = 4605.8569 kcal/mol (4604.1936 without restraints) Performing minimization step: 2445. Total energy = 4603.2734 kcal/mol (4601.6102 without restraints) Performing minimization step: 2446. Total energy = 4600.6927 kcal/mol (4599.0295 without restraints) Performing minimization step: 2447. Total energy = 4598.1147 kcal/mol (4596.4516 without restraints) Performing minimization step: 2448. Total energy = 4595.5394 kcal/mol (4593.8763 without restraints) Performing minimization step: 2449. Total energy = 4592.9668 kcal/mol (4591.3038 without restraints) Performing minimization step: 2450. Total energy = 4590.3970 kcal/mol (4588.7341 without restraints) Performing minimization step: 2451. Total energy = 4587.8299 kcal/mol (4586.1670 without restraints) Performing minimization step: 2452. Total energy = 4585.2656 kcal/mol (4583.6027 without restraints) Performing minimization step: 2453. Total energy = 4582.7038 kcal/mol (4581.0410 without restraints) Performing minimization step: 2454. Total energy = 4580.1447 kcal/mol (4578.4819 without restraints) Performing minimization step: 2455. Total energy = 4577.5883 kcal/mol (4575.9256 without restraints) Performing minimization step: 2456. Total energy = 4575.0345 kcal/mol (4573.3719 without restraints) Performing minimization step: 2457. Total energy = 4572.4835 kcal/mol (4570.8209 without restraints) Performing minimization step: 2458. Total energy = 4569.9351 kcal/mol (4568.2725 without restraints) Performing minimization step: 2459. Total energy = 4567.3894 kcal/mol (4565.7269 without restraints) Performing minimization step: 2460. Total energy = 4564.8461 kcal/mol (4563.1836 without restraints) Performing minimization step: 2461. Total energy = 4562.3055 kcal/mol (4560.6431 without restraints) Performing minimization step: 2462. Total energy = 4559.7678 kcal/mol (4558.1054 without restraints) Performing minimization step: 2463. Total energy = 4557.2327 kcal/mol (4555.5704 without restraints) Performing minimization step: 2464. Total energy = 4554.7003 kcal/mol (4553.0380 without restraints) Performing minimization step: 2465. Total energy = 4552.1706 kcal/mol (4550.5083 without restraints) Performing minimization step: 2466. Total energy = 4549.6435 kcal/mol (4547.9813 without restraints) Performing minimization step: 2467. Total energy = 4547.1190 kcal/mol (4545.4569 without restraints) Performing minimization step: 2468. Total energy = 4544.5972 kcal/mol (4542.9351 without restraints) Performing minimization step: 2469. Total energy = 4542.0782 kcal/mol (4540.4162 without restraints) Performing minimization step: 2470. Total energy = 4539.5617 kcal/mol (4537.8996 without restraints) Performing minimization step: 2471. Total energy = 4537.0478 kcal/mol (4535.3858 without restraints) Performing minimization step: 2472. Total energy = 4534.5365 kcal/mol (4532.8746 without restraints) Performing minimization step: 2473. Total energy = 4532.0278 kcal/mol (4530.3659 without restraints) Performing minimization step: 2474. Total energy = 4529.5215 kcal/mol (4527.8596 without restraints) Performing minimization step: 2475. Total energy = 4527.0180 kcal/mol (4525.3562 without restraints) Performing minimization step: 2476. Total energy = 4524.5175 kcal/mol (4522.8557 without restraints) Performing minimization step: 2477. Total energy = 4522.0192 kcal/mol (4520.3575 without restraints) Performing minimization step: 2478. Total energy = 4519.5236 kcal/mol (4517.8619 without restraints) Performing minimization step: 2479. Total energy = 4517.0310 kcal/mol (4515.3694 without restraints) Performing minimization step: 2480. Total energy = 4514.5406 kcal/mol (4512.8790 without restraints) Performing minimization step: 2481. Total energy = 4512.0528 kcal/mol (4510.3912 without restraints) Performing minimization step: 2482. Total energy = 4509.5675 kcal/mol (4507.9059 without restraints) Performing minimization step: 2483. Total energy = 4507.0848 kcal/mol (4505.4233 without restraints) Performing minimization step: 2484. Total energy = 4504.6047 kcal/mol (4502.9432 without restraints) Performing minimization step: 2485. Total energy = 4502.1272 kcal/mol (4500.4658 without restraints) Performing minimization step: 2486. Total energy = 4499.6523 kcal/mol (4497.9909 without restraints) Performing minimization step: 2487. Total energy = 4497.1802 kcal/mol (4495.5190 without restraints) Performing minimization step: 2488. Total energy = 4494.7105 kcal/mol (4493.0492 without restraints) Performing minimization step: 2489. Total energy = 4492.2433 kcal/mol (4490.5820 without restraints) Performing minimization step: 2490. Total energy = 4489.7786 kcal/mol (4488.1173 without restraints) Performing minimization step: 2491. Total energy = 4487.3165 kcal/mol (4485.6553 without restraints) Performing minimization step: 2492. Total energy = 4484.8567 kcal/mol (4483.1955 without restraints) Performing minimization step: 2493. Total energy = 4482.3998 kcal/mol (4480.7386 without restraints) Performing minimization step: 2494. Total energy = 4479.9455 kcal/mol (4478.2844 without restraints) Performing minimization step: 2495. Total energy = 4477.4936 kcal/mol (4475.8324 without restraints) Performing minimization step: 2496. Total energy = 4475.0442 kcal/mol (4473.3831 without restraints) Performing minimization step: 2497. Total energy = 4472.5973 kcal/mol (4470.9362 without restraints) Performing minimization step: 2498. Total energy = 4470.1530 kcal/mol (4468.4919 without restraints) Performing minimization step: 2499. Total energy = 4467.7112 kcal/mol (4466.0502 without restraints) Performing minimization step: 2500. Total energy = 4465.2719 kcal/mol (4463.6109 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 2501. Total energy = 4462.8349 kcal/mol (4461.1740 without restraints) Performing minimization step: 2502. Total energy = 4460.4007 kcal/mol (4458.7398 without restraints) Performing minimization step: 2503. Total energy = 4457.9689 kcal/mol (4456.3080 without restraints) Performing minimization step: 2504. Total energy = 4455.5397 kcal/mol (4453.8788 without restraints) Performing minimization step: 2505. Total energy = 4453.1130 kcal/mol (4451.4521 without restraints) Performing minimization step: 2506. Total energy = 4450.6888 kcal/mol (4449.0279 without restraints) Performing minimization step: 2507. Total energy = 4448.2672 kcal/mol (4446.6064 without restraints) Performing minimization step: 2508. Total energy = 4445.8480 kcal/mol (4444.1872 without restraints) Performing minimization step: 2509. Total energy = 4443.4313 kcal/mol (4441.7705 without restraints) Performing minimization step: 2510. Total energy = 4441.0170 kcal/mol (4439.3563 without restraints) Performing minimization step: 2511. Total energy = 4438.6052 kcal/mol (4436.9445 without restraints) Performing minimization step: 2512. Total energy = 4436.1959 kcal/mol (4434.5352 without restraints) Performing minimization step: 2513. Total energy = 4433.7891 kcal/mol (4432.1285 without restraints) Performing minimization step: 2514. Total energy = 4431.3847 kcal/mol (4429.7241 without restraints) Performing minimization step: 2515. Total energy = 4428.9829 kcal/mol (4427.3222 without restraints) Performing minimization step: 2516. Total energy = 4426.5834 kcal/mol (4424.9228 without restraints) Performing minimization step: 2517. Total energy = 4424.1865 kcal/mol (4422.5259 without restraints) Performing minimization step: 2518. Total energy = 4421.7920 kcal/mol (4420.1314 without restraints) Performing minimization step: 2519. Total energy = 4419.4000 kcal/mol (4417.7394 without restraints) Performing minimization step: 2520. Total energy = 4417.0104 kcal/mol (4415.3498 without restraints) Performing minimization step: 2521. Total energy = 4414.6232 kcal/mol (4412.9627 without restraints) Performing minimization step: 2522. Total energy = 4412.2388 kcal/mol (4410.5783 without restraints) Performing minimization step: 2523. Total energy = 4409.8565 kcal/mol (4408.1960 without restraints) Performing minimization step: 2524. Total energy = 4407.4767 kcal/mol (4405.8162 without restraints) Performing minimization step: 2525. Total energy = 4405.0993 kcal/mol (4403.4388 without restraints) Performing minimization step: 2526. Total energy = 4402.7243 kcal/mol (4401.0639 without restraints) Performing minimization step: 2527. Total energy = 4400.3518 kcal/mol (4398.6914 without restraints) Performing minimization step: 2528. Total energy = 4397.9819 kcal/mol (4396.3215 without restraints) Performing minimization step: 2529. Total energy = 4395.6143 kcal/mol (4393.9540 without restraints) Performing minimization step: 2530. Total energy = 4393.2491 kcal/mol (4391.5888 without restraints) Performing minimization step: 2531. Total energy = 4390.8863 kcal/mol (4389.2259 without restraints) Performing minimization step: 2532. Total energy = 4388.5258 kcal/mol (4386.8655 without restraints) Performing minimization step: 2533. Total energy = 4386.1678 kcal/mol (4384.5075 without restraints) Performing minimization step: 2534. Total energy = 4383.8122 kcal/mol (4382.1518 without restraints) Performing minimization step: 2535. Total energy = 4381.4589 kcal/mol (4379.7986 without restraints) Performing minimization step: 2536. Total energy = 4379.1081 kcal/mol (4377.4478 without restraints) Performing minimization step: 2537. Total energy = 4376.7596 kcal/mol (4375.0993 without restraints) Performing minimization step: 2538. Total energy = 4374.4135 kcal/mol (4372.7532 without restraints) Performing minimization step: 2539. Total energy = 4372.0699 kcal/mol (4370.4096 without restraints) Performing minimization step: 2540. Total energy = 4369.7288 kcal/mol (4368.0685 without restraints) Performing minimization step: 2541. Total energy = 4367.3899 kcal/mol (4365.7296 without restraints) Performing minimization step: 2542. Total energy = 4365.0535 kcal/mol (4363.3933 without restraints) Performing minimization step: 2543. Total energy = 4362.7193 kcal/mol (4361.0590 without restraints) Performing minimization step: 2544. Total energy = 4360.3875 kcal/mol (4358.7272 without restraints) Performing minimization step: 2545. Total energy = 4358.0580 kcal/mol (4356.3977 without restraints) Performing minimization step: 2546. Total energy = 4355.7309 kcal/mol (4354.0706 without restraints) Performing minimization step: 2547. Total energy = 4353.4061 kcal/mol (4351.7458 without restraints) Performing minimization step: 2548. Total energy = 4351.0837 kcal/mol (4349.4234 without restraints) Performing minimization step: 2549. Total energy = 4348.7636 kcal/mol (4347.1034 without restraints) Performing minimization step: 2550. Total energy = 4346.4459 kcal/mol (4344.7856 without restraints) Performing minimization step: 2551. Total energy = 4344.1305 kcal/mol (4342.4702 without restraints) Performing minimization step: 2552. Total energy = 4341.8176 kcal/mol (4340.1574 without restraints) Performing minimization step: 2553. Total energy = 4339.5069 kcal/mol (4337.8467 without restraints) Performing minimization step: 2554. Total energy = 4337.1985 kcal/mol (4335.5383 without restraints) Performing minimization step: 2555. Total energy = 4334.8925 kcal/mol (4333.2322 without restraints) Performing minimization step: 2556. Total energy = 4332.5887 kcal/mol (4330.9285 without restraints) Performing minimization step: 2557. Total energy = 4330.2873 kcal/mol (4328.6271 without restraints) Performing minimization step: 2558. Total energy = 4327.9882 kcal/mol (4326.3280 without restraints) Performing minimization step: 2559. Total energy = 4325.6915 kcal/mol (4324.0313 without restraints) Performing minimization step: 2560. Total energy = 4323.3974 kcal/mol (4321.7371 without restraints) Performing minimization step: 2561. Total energy = 4321.1052 kcal/mol (4319.4449 without restraints) Performing minimization step: 2562. Total energy = 4318.8153 kcal/mol (4317.1551 without restraints) Performing minimization step: 2563. Total energy = 4316.5277 kcal/mol (4314.8675 without restraints) Performing minimization step: 2564. Total energy = 4314.2424 kcal/mol (4312.5822 without restraints) Performing minimization step: 2565. Total energy = 4311.9594 kcal/mol (4310.2992 without restraints) Performing minimization step: 2566. Total energy = 4309.6787 kcal/mol (4308.0185 without restraints) Performing minimization step: 2567. Total energy = 4307.4003 kcal/mol (4305.7400 without restraints) Performing minimization step: 2568. Total energy = 4305.1242 kcal/mol (4303.4639 without restraints) Performing minimization step: 2569. Total energy = 4302.8505 kcal/mol (4301.1902 without restraints) Performing minimization step: 2570. Total energy = 4300.5789 kcal/mol (4298.9187 without restraints) Performing minimization step: 2571. Total energy = 4298.3094 kcal/mol (4296.6491 without restraints) Performing minimization step: 2572. Total energy = 4296.0423 kcal/mol (4294.3820 without restraints) Performing minimization step: 2573. Total energy = 4293.7775 kcal/mol (4292.1172 without restraints) Performing minimization step: 2574. Total energy = 4291.5150 kcal/mol (4289.8547 without restraints) Performing minimization step: 2575. Total energy = 4289.2547 kcal/mol (4287.5944 without restraints) Performing minimization step: 2576. Total energy = 4286.9967 kcal/mol (4285.3363 without restraints) Performing minimization step: 2577. Total energy = 4284.7409 kcal/mol (4283.0805 without restraints) Performing minimization step: 2578. Total energy = 4282.4874 kcal/mol (4280.8270 without restraints) Performing minimization step: 2579. Total energy = 4280.2361 kcal/mol (4278.5757 without restraints) Performing minimization step: 2580. Total energy = 4277.9870 kcal/mol (4276.3266 without restraints) Performing minimization step: 2581. Total energy = 4275.7402 kcal/mol (4274.0798 without restraints) Performing minimization step: 2582. Total energy = 4273.4956 kcal/mol (4271.8352 without restraints) Performing minimization step: 2583. Total energy = 4271.2533 kcal/mol (4269.5929 without restraints) Performing minimization step: 2584. Total energy = 4269.0132 kcal/mol (4267.3528 without restraints) Performing minimization step: 2585. Total energy = 4266.7753 kcal/mol (4265.1148 without restraints) Performing minimization step: 2586. Total energy = 4264.5396 kcal/mol (4262.8791 without restraints) Performing minimization step: 2587. Total energy = 4262.3061 kcal/mol (4260.6457 without restraints) Performing minimization step: 2588. Total energy = 4260.0751 kcal/mol (4258.4146 without restraints) Performing minimization step: 2589. Total energy = 4257.8460 kcal/mol (4256.1855 without restraints) Performing minimization step: 2590. Total energy = 4255.6192 kcal/mol (4253.9587 without restraints) Performing minimization step: 2591. Total energy = 4253.3946 kcal/mol (4251.7340 without restraints) Performing minimization step: 2592. Total energy = 4251.1721 kcal/mol (4249.5116 without restraints) Performing minimization step: 2593. Total energy = 4248.9516 kcal/mol (4247.2911 without restraints) Performing minimization step: 2594. Total energy = 4246.7336 kcal/mol (4245.0730 without restraints) Performing minimization step: 2595. Total energy = 4244.5177 kcal/mol (4242.8571 without restraints) Performing minimization step: 2596. Total energy = 4242.3040 kcal/mol (4240.6434 without restraints) Performing minimization step: 2597. Total energy = 4240.0927 kcal/mol (4238.4321 without restraints) Performing minimization step: 2598. Total energy = 4237.8834 kcal/mol (4236.2227 without restraints) Performing minimization step: 2599. Total energy = 4235.6762 kcal/mol (4234.0155 without restraints) Performing minimization step: 2600. Total energy = 4233.4712 kcal/mol (4231.8105 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 2601. Total energy = 4231.2686 kcal/mol (4229.6081 without restraints) Performing minimization step: 2602. Total energy = 4229.0681 kcal/mol (4227.4074 without restraints) Performing minimization step: 2603. Total energy = 4226.8696 kcal/mol (4225.2088 without restraints) Performing minimization step: 2604. Total energy = 4224.6732 kcal/mol (4223.0125 without restraints) Performing minimization step: 2605. Total energy = 4222.4793 kcal/mol (4220.8184 without restraints) Performing minimization step: 2606. Total energy = 4220.2872 kcal/mol (4218.6264 without restraints) Performing minimization step: 2607. Total energy = 4218.0973 kcal/mol (4216.4364 without restraints) Performing minimization step: 2608. Total energy = 4215.9099 kcal/mol (4214.2491 without restraints) Performing minimization step: 2609. Total energy = 4213.7243 kcal/mol (4212.0634 without restraints) Performing minimization step: 2610. Total energy = 4211.5408 kcal/mol (4209.8799 without restraints) Performing minimization step: 2611. Total energy = 4209.3596 kcal/mol (4207.6987 without restraints) Performing minimization step: 2612. Total energy = 4207.1806 kcal/mol (4205.5197 without restraints) Performing minimization step: 2613. Total energy = 4205.0036 kcal/mol (4203.3426 without restraints) Performing minimization step: 2614. Total energy = 4202.8286 kcal/mol (4201.1676 without restraints) Performing minimization step: 2615. Total energy = 4200.6557 kcal/mol (4198.9947 without restraints) Performing minimization step: 2616. Total energy = 4198.4850 kcal/mol (4196.8239 without restraints) Performing minimization step: 2617. Total energy = 4196.3164 kcal/mol (4194.6552 without restraints) Performing minimization step: 2618. Total energy = 4194.1498 kcal/mol (4192.4887 without restraints) Performing minimization step: 2619. Total energy = 4191.9854 kcal/mol (4190.3243 without restraints) Performing minimization step: 2620. Total energy = 4189.8231 kcal/mol (4188.1619 without restraints) Performing minimization step: 2621. Total energy = 4187.6629 kcal/mol (4186.0017 without restraints) Performing minimization step: 2622. Total energy = 4185.5050 kcal/mol (4183.8437 without restraints) Performing minimization step: 2623. Total energy = 4183.3492 kcal/mol (4181.6881 without restraints) Performing minimization step: 2624. Total energy = 4181.1954 kcal/mol (4179.5341 without restraints) Performing minimization step: 2625. Total energy = 4179.0436 kcal/mol (4177.3822 without restraints) Performing minimization step: 2626. Total energy = 4176.8938 kcal/mol (4175.2324 without restraints) Performing minimization step: 2627. Total energy = 4174.7461 kcal/mol (4173.0847 without restraints) Performing minimization step: 2628. Total energy = 4172.6005 kcal/mol (4170.9390 without restraints) Performing minimization step: 2629. Total energy = 4170.4570 kcal/mol (4168.7955 without restraints) Performing minimization step: 2630. Total energy = 4168.3155 kcal/mol (4166.6540 without restraints) Performing minimization step: 2631. Total energy = 4166.1761 kcal/mol (4164.5145 without restraints) Performing minimization step: 2632. Total energy = 4164.0389 kcal/mol (4162.3774 without restraints) Performing minimization step: 2633. Total energy = 4161.9037 kcal/mol (4160.2421 without restraints) Performing minimization step: 2634. Total energy = 4159.7704 kcal/mol (4158.1088 without restraints) Performing minimization step: 2635. Total energy = 4157.6393 kcal/mol (4155.9776 without restraints) Performing minimization step: 2636. Total energy = 4155.5101 kcal/mol (4153.8484 without restraints) Performing minimization step: 2637. Total energy = 4153.3830 kcal/mol (4151.7213 without restraints) Performing minimization step: 2638. Total energy = 4151.2580 kcal/mol (4149.5962 without restraints) Performing minimization step: 2639. Total energy = 4149.1354 kcal/mol (4147.4735 without restraints) Performing minimization step: 2640. Total energy = 4147.0144 kcal/mol (4145.3525 without restraints) Performing minimization step: 2641. Total energy = 4144.8954 kcal/mol (4143.2335 without restraints) Performing minimization step: 2642. Total energy = 4142.7786 kcal/mol (4141.1166 without restraints) Performing minimization step: 2643. Total energy = 4140.6635 kcal/mol (4139.0015 without restraints) Performing minimization step: 2644. Total energy = 4138.5506 kcal/mol (4136.8886 without restraints) Performing minimization step: 2645. Total energy = 4136.4398 kcal/mol (4134.7777 without restraints) Performing minimization step: 2646. Total energy = 4134.3309 kcal/mol (4132.6688 without restraints) Performing minimization step: 2647. Total energy = 4132.2242 kcal/mol (4130.5621 without restraints) Performing minimization step: 2648. Total energy = 4130.1195 kcal/mol (4128.4573 without restraints) Performing minimization step: 2649. Total energy = 4128.0166 kcal/mol (4126.3544 without restraints) Performing minimization step: 2650. Total energy = 4125.9158 kcal/mol (4124.2536 without restraints) Performing minimization step: 2651. Total energy = 4123.8170 kcal/mol (4122.1547 without restraints) Performing minimization step: 2652. Total energy = 4121.7202 kcal/mol (4120.0578 without restraints) Performing minimization step: 2653. Total energy = 4119.6254 kcal/mol (4117.9630 without restraints) Performing minimization step: 2654. Total energy = 4117.5325 kcal/mol (4115.8700 without restraints) Performing minimization step: 2655. Total energy = 4115.4416 kcal/mol (4113.7791 without restraints) Performing minimization step: 2656. Total energy = 4113.3527 kcal/mol (4111.6902 without restraints) Performing minimization step: 2657. Total energy = 4111.2659 kcal/mol (4109.6033 without restraints) Performing minimization step: 2658. Total energy = 4109.1809 kcal/mol (4107.5183 without restraints) Performing minimization step: 2659. Total energy = 4107.0980 kcal/mol (4105.4353 without restraints) Performing minimization step: 2660. Total energy = 4105.0170 kcal/mol (4103.3543 without restraints) Performing minimization step: 2661. Total energy = 4102.9378 kcal/mol (4101.2750 without restraints) Performing minimization step: 2662. Total energy = 4100.8607 kcal/mol (4099.1979 without restraints) Performing minimization step: 2663. Total energy = 4098.7856 kcal/mol (4097.1228 without restraints) Performing minimization step: 2664. Total energy = 4096.7125 kcal/mol (4095.0496 without restraints) Performing minimization step: 2665. Total energy = 4094.6416 kcal/mol (4092.9787 without restraints) Performing minimization step: 2666. Total energy = 4092.5724 kcal/mol (4090.9094 without restraints) Performing minimization step: 2667. Total energy = 4090.5051 kcal/mol (4088.8420 without restraints) Performing minimization step: 2668. Total energy = 4088.4397 kcal/mol (4086.7767 without restraints) Performing minimization step: 2669. Total energy = 4086.3763 kcal/mol (4084.7131 without restraints) Performing minimization step: 2670. Total energy = 4084.3147 kcal/mol (4082.6515 without restraints) Performing minimization step: 2671. Total energy = 4082.2552 kcal/mol (4080.5920 without restraints) Performing minimization step: 2672. Total energy = 4080.1976 kcal/mol (4078.5343 without restraints) Performing minimization step: 2673. Total energy = 4078.1419 kcal/mol (4076.4786 without restraints) Performing minimization step: 2674. Total energy = 4076.0882 kcal/mol (4074.4248 without restraints) Performing minimization step: 2675. Total energy = 4074.0364 kcal/mol (4072.3729 without restraints) Performing minimization step: 2676. Total energy = 4071.9865 kcal/mol (4070.3230 without restraints) Performing minimization step: 2677. Total energy = 4069.9384 kcal/mol (4068.2749 without restraints) Performing minimization step: 2678. Total energy = 4067.8923 kcal/mol (4066.2287 without restraints) Performing minimization step: 2679. Total energy = 4065.8481 kcal/mol (4064.1845 without restraints) Performing minimization step: 2680. Total energy = 4063.8059 kcal/mol (4062.1421 without restraints) Performing minimization step: 2681. Total energy = 4061.7655 kcal/mol (4060.1017 without restraints) Performing minimization step: 2682. Total energy = 4059.7270 kcal/mol (4058.0632 without restraints) Performing minimization step: 2683. Total energy = 4057.6904 kcal/mol (4056.0265 without restraints) Performing minimization step: 2684. Total energy = 4055.6557 kcal/mol (4053.9918 without restraints) Performing minimization step: 2685. Total energy = 4053.6229 kcal/mol (4051.9589 without restraints) Performing minimization step: 2686. Total energy = 4051.5920 kcal/mol (4049.9280 without restraints) Performing minimization step: 2687. Total energy = 4049.5630 kcal/mol (4047.8989 without restraints) Performing minimization step: 2688. Total energy = 4047.5358 kcal/mol (4045.8716 without restraints) Performing minimization step: 2689. Total energy = 4045.5105 kcal/mol (4043.8463 without restraints) Performing minimization step: 2690. Total energy = 4043.4871 kcal/mol (4041.8228 without restraints) Performing minimization step: 2691. Total energy = 4041.4656 kcal/mol (4039.8012 without restraints) Performing minimization step: 2692. Total energy = 4039.4459 kcal/mol (4037.7815 without restraints) Performing minimization step: 2693. Total energy = 4037.4281 kcal/mol (4035.7636 without restraints) Performing minimization step: 2694. Total energy = 4035.4121 kcal/mol (4033.7476 without restraints) Performing minimization step: 2695. Total energy = 4033.3980 kcal/mol (4031.7334 without restraints) Performing minimization step: 2696. Total energy = 4031.3860 kcal/mol (4029.7213 without restraints) Performing minimization step: 2697. Total energy = 4029.3756 kcal/mol (4027.7109 without restraints) Performing minimization step: 2698. Total energy = 4027.3671 kcal/mol (4025.7023 without restraints) Performing minimization step: 2699. Total energy = 4025.3604 kcal/mol (4023.6955 without restraints) Performing minimization step: 2700. Total energy = 4023.3555 kcal/mol (4021.6906 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 2701. Total energy = 4021.3525 kcal/mol (4019.6875 without restraints) Performing minimization step: 2702. Total energy = 4019.3513 kcal/mol (4017.6863 without restraints) Performing minimization step: 2703. Total energy = 4017.3519 kcal/mol (4015.6869 without restraints) Performing minimization step: 2704. Total energy = 4015.3544 kcal/mol (4013.6893 without restraints) Performing minimization step: 2705. Total energy = 4013.3587 kcal/mol (4011.6936 without restraints) Performing minimization step: 2706. Total energy = 4011.3648 kcal/mol (4009.6996 without restraints) Performing minimization step: 2707. Total energy = 4009.3728 kcal/mol (4007.7075 without restraints) Performing minimization step: 2708. Total energy = 4007.3827 kcal/mol (4005.7174 without restraints) Performing minimization step: 2709. Total energy = 4005.3943 kcal/mol (4003.7288 without restraints) Performing minimization step: 2710. Total energy = 4003.4076 kcal/mol (4001.7421 without restraints) Performing minimization step: 2711. Total energy = 4001.4228 kcal/mol (3999.7573 without restraints) Performing minimization step: 2712. Total energy = 3999.4398 kcal/mol (3997.7742 without restraints) Performing minimization step: 2713. Total energy = 3997.4586 kcal/mol (3995.7929 without restraints) Performing minimization step: 2714. Total energy = 3995.4791 kcal/mol (3993.8134 without restraints) Performing minimization step: 2715. Total energy = 3993.5015 kcal/mol (3991.8357 without restraints) Performing minimization step: 2716. Total energy = 3991.5257 kcal/mol (3989.8598 without restraints) Performing minimization step: 2717. Total energy = 3989.5516 kcal/mol (3987.8856 without restraints) Performing minimization step: 2718. Total energy = 3987.5793 kcal/mol (3985.9133 without restraints) Performing minimization step: 2719. Total energy = 3985.6088 kcal/mol (3983.9427 without restraints) Performing minimization step: 2720. Total energy = 3983.6401 kcal/mol (3981.9740 without restraints) Performing minimization step: 2721. Total energy = 3981.6732 kcal/mol (3980.0070 without restraints) Performing minimization step: 2722. Total energy = 3979.7081 kcal/mol (3978.0418 without restraints) Performing minimization step: 2723. Total energy = 3977.7447 kcal/mol (3976.0783 without restraints) Performing minimization step: 2724. Total energy = 3975.7830 kcal/mol (3974.1166 without restraints) Performing minimization step: 2725. Total energy = 3973.8232 kcal/mol (3972.1566 without restraints) Performing minimization step: 2726. Total energy = 3971.8651 kcal/mol (3970.1985 without restraints) Performing minimization step: 2727. Total energy = 3969.9087 kcal/mol (3968.2420 without restraints) Performing minimization step: 2728. Total energy = 3967.9541 kcal/mol (3966.2874 without restraints) Performing minimization step: 2729. Total energy = 3966.0013 kcal/mol (3964.3344 without restraints) Performing minimization step: 2730. Total energy = 3964.0502 kcal/mol (3962.3833 without restraints) Performing minimization step: 2731. Total energy = 3962.1008 kcal/mol (3960.4338 without restraints) Performing minimization step: 2732. Total energy = 3960.1534 kcal/mol (3958.4864 without restraints) Performing minimization step: 2733. Total energy = 3958.2075 kcal/mol (3956.5404 without restraints) Performing minimization step: 2734. Total energy = 3956.2634 kcal/mol (3954.5962 without restraints) Performing minimization step: 2735. Total energy = 3954.3210 kcal/mol (3952.6537 without restraints) Performing minimization step: 2736. Total energy = 3952.3803 kcal/mol (3950.7130 without restraints) Performing minimization step: 2737. Total energy = 3950.4411 kcal/mol (3948.7737 without restraints) Performing minimization step: 2738. Total energy = 3948.5039 kcal/mol (3946.8364 without restraints) Performing minimization step: 2739. Total energy = 3946.5684 kcal/mol (3944.9008 without restraints) Performing minimization step: 2740. Total energy = 3944.6346 kcal/mol (3942.9670 without restraints) Performing minimization step: 2741. Total energy = 3942.7025 kcal/mol (3941.0348 without restraints) Performing minimization step: 2742. Total energy = 3940.7721 kcal/mol (3939.1043 without restraints) Performing minimization step: 2743. Total energy = 3938.8435 kcal/mol (3937.1756 without restraints) Performing minimization step: 2744. Total energy = 3936.9165 kcal/mol (3935.2486 without restraints) Performing minimization step: 2745. Total energy = 3934.9912 kcal/mol (3933.3232 without restraints) Performing minimization step: 2746. Total energy = 3933.0677 kcal/mol (3931.3996 without restraints) Performing minimization step: 2747. Total energy = 3931.1458 kcal/mol (3929.4776 without restraints) Performing minimization step: 2748. Total energy = 3929.2256 kcal/mol (3927.5574 without restraints) Performing minimization step: 2749. Total energy = 3927.3071 kcal/mol (3925.6388 without restraints) Performing minimization step: 2750. Total energy = 3925.3903 kcal/mol (3923.7219 without restraints) Performing minimization step: 2751. Total energy = 3923.4752 kcal/mol (3921.8067 without restraints) Performing minimization step: 2752. Total energy = 3921.5618 kcal/mol (3919.8932 without restraints) Performing minimization step: 2753. Total energy = 3919.6500 kcal/mol (3917.9814 without restraints) Performing minimization step: 2754. Total energy = 3917.7400 kcal/mol (3916.0712 without restraints) Performing minimization step: 2755. Total energy = 3915.8315 kcal/mol (3914.1627 without restraints) Performing minimization step: 2756. Total energy = 3913.9248 kcal/mol (3912.2559 without restraints) Performing minimization step: 2757. Total energy = 3912.0197 kcal/mol (3910.3508 without restraints) Performing minimization step: 2758. Total energy = 3910.1163 kcal/mol (3908.4473 without restraints) Performing minimization step: 2759. Total energy = 3908.2146 kcal/mol (3906.5454 without restraints) Performing minimization step: 2760. Total energy = 3906.3147 kcal/mol (3904.6454 without restraints) Performing minimization step: 2761. Total energy = 3904.4162 kcal/mol (3902.7469 without restraints) Performing minimization step: 2762. Total energy = 3902.5194 kcal/mol (3900.8500 without restraints) Performing minimization step: 2763. Total energy = 3900.6243 kcal/mol (3898.9548 without restraints) Performing minimization step: 2764. Total energy = 3898.7308 kcal/mol (3897.0612 without restraints) Performing minimization step: 2765. Total energy = 3896.8389 kcal/mol (3895.1693 without restraints) Performing minimization step: 2766. Total energy = 3894.9487 kcal/mol (3893.2790 without restraints) Performing minimization step: 2767. Total energy = 3893.0601 kcal/mol (3891.3903 without restraints) Performing minimization step: 2768. Total energy = 3891.1734 kcal/mol (3889.5035 without restraints) Performing minimization step: 2769. Total energy = 3889.2879 kcal/mol (3887.6179 without restraints) Performing minimization step: 2770. Total energy = 3887.4042 kcal/mol (3885.7342 without restraints) Performing minimization step: 2771. Total energy = 3885.5222 kcal/mol (3883.8520 without restraints) Performing minimization step: 2772. Total energy = 3883.6419 kcal/mol (3881.9717 without restraints) Performing minimization step: 2773. Total energy = 3881.7631 kcal/mol (3880.0928 without restraints) Performing minimization step: 2774. Total energy = 3879.8861 kcal/mol (3878.2157 without restraints) Performing minimization step: 2775. Total energy = 3878.0105 kcal/mol (3876.3400 without restraints) Performing minimization step: 2776. Total energy = 3876.1364 kcal/mol (3874.4659 without restraints) Performing minimization step: 2777. Total energy = 3874.2641 kcal/mol (3872.5934 without restraints) Performing minimization step: 2778. Total energy = 3872.3933 kcal/mol (3870.7226 without restraints) Performing minimization step: 2779. Total energy = 3870.5242 kcal/mol (3868.8533 without restraints) Performing minimization step: 2780. Total energy = 3868.6566 kcal/mol (3866.9856 without restraints) Performing minimization step: 2781. Total energy = 3866.7907 kcal/mol (3865.1198 without restraints) Performing minimization step: 2782. Total energy = 3864.9264 kcal/mol (3863.2553 without restraints) Performing minimization step: 2783. Total energy = 3863.0636 kcal/mol (3861.3924 without restraints) Performing minimization step: 2784. Total energy = 3861.2024 kcal/mol (3859.5311 without restraints) Performing minimization step: 2785. Total energy = 3859.3430 kcal/mol (3857.6716 without restraints) Performing minimization step: 2786. Total energy = 3857.4850 kcal/mol (3855.8135 without restraints) Performing minimization step: 2787. Total energy = 3855.6286 kcal/mol (3853.9572 without restraints) Performing minimization step: 2788. Total energy = 3853.7738 kcal/mol (3852.1021 without restraints) Performing minimization step: 2789. Total energy = 3851.9205 kcal/mol (3850.2487 without restraints) Performing minimization step: 2790. Total energy = 3850.0687 kcal/mol (3848.3969 without restraints) Performing minimization step: 2791. Total energy = 3848.2185 kcal/mol (3846.5466 without restraints) Performing minimization step: 2792. Total energy = 3846.3699 kcal/mol (3844.6979 without restraints) Performing minimization step: 2793. Total energy = 3844.5229 kcal/mol (3842.8507 without restraints) Performing minimization step: 2794. Total energy = 3842.6773 kcal/mol (3841.0051 without restraints) Performing minimization step: 2795. Total energy = 3840.8334 kcal/mol (3839.1611 without restraints) Performing minimization step: 2796. Total energy = 3838.9910 kcal/mol (3837.3186 without restraints) Performing minimization step: 2797. Total energy = 3837.1501 kcal/mol (3835.4776 without restraints) Performing minimization step: 2798. Total energy = 3835.3108 kcal/mol (3833.6382 without restraints) Performing minimization step: 2799. Total energy = 3833.4731 kcal/mol (3831.8004 without restraints) Performing minimization step: 2800. Total energy = 3831.6369 kcal/mol (3829.9641 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 2801. Total energy = 3829.8022 kcal/mol (3828.1293 without restraints) Performing minimization step: 2802. Total energy = 3827.9690 kcal/mol (3826.2961 without restraints) Performing minimization step: 2803. Total energy = 3826.1374 kcal/mol (3824.4643 without restraints) Performing minimization step: 2804. Total energy = 3824.3073 kcal/mol (3822.6342 without restraints) Performing minimization step: 2805. Total energy = 3822.4788 kcal/mol (3820.8055 without restraints) Performing minimization step: 2806. Total energy = 3820.6518 kcal/mol (3818.9784 without restraints) Performing minimization step: 2807. Total energy = 3818.8262 kcal/mol (3817.1528 without restraints) Performing minimization step: 2808. Total energy = 3817.0023 kcal/mol (3815.3287 without restraints) Performing minimization step: 2809. Total energy = 3815.1798 kcal/mol (3813.5061 without restraints) Performing minimization step: 2810. Total energy = 3813.3588 kcal/mol (3811.6850 without restraints) Performing minimization step: 2811. Total energy = 3811.5394 kcal/mol (3809.8655 without restraints) Performing minimization step: 2812. Total energy = 3809.7216 kcal/mol (3808.0477 without restraints) Performing minimization step: 2813. Total energy = 3807.9052 kcal/mol (3806.2311 without restraints) Performing minimization step: 2814. Total energy = 3806.0902 kcal/mol (3804.4161 without restraints) Performing minimization step: 2815. Total energy = 3804.2768 kcal/mol (3802.6025 without restraints) Performing minimization step: 2816. Total energy = 3802.4648 kcal/mol (3800.7905 without restraints) Performing minimization step: 2817. Total energy = 3800.6545 kcal/mol (3798.9801 without restraints) Performing minimization step: 2818. Total energy = 3798.8459 kcal/mol (3797.1713 without restraints) Performing minimization step: 2819. Total energy = 3797.0384 kcal/mol (3795.3637 without restraints) Performing minimization step: 2820. Total energy = 3795.2324 kcal/mol (3793.5576 without restraints) Performing minimization step: 2821. Total energy = 3793.4279 kcal/mol (3791.7530 without restraints) Performing minimization step: 2822. Total energy = 3791.6250 kcal/mol (3789.9502 without restraints) Performing minimization step: 2823. Total energy = 3789.8236 kcal/mol (3788.1485 without restraints) Performing minimization step: 2824. Total energy = 3788.0235 kcal/mol (3786.3483 without restraints) Performing minimization step: 2825. Total energy = 3786.2249 kcal/mol (3784.5496 without restraints) Performing minimization step: 2826. Total energy = 3784.4278 kcal/mol (3782.7525 without restraints) Performing minimization step: 2827. Total energy = 3782.6322 kcal/mol (3780.9568 without restraints) Performing minimization step: 2828. Total energy = 3780.8380 kcal/mol (3779.1624 without restraints) Performing minimization step: 2829. Total energy = 3779.0455 kcal/mol (3777.3698 without restraints) Performing minimization step: 2830. Total energy = 3777.2542 kcal/mol (3775.5784 without restraints) Performing minimization step: 2831. Total energy = 3775.4644 kcal/mol (3773.7885 without restraints) Performing minimization step: 2832. Total energy = 3773.6760 kcal/mol (3772.0000 without restraints) Performing minimization step: 2833. Total energy = 3771.8891 kcal/mol (3770.2130 without restraints) Performing minimization step: 2834. Total energy = 3770.1036 kcal/mol (3768.4274 without restraints) Performing minimization step: 2835. Total energy = 3768.3195 kcal/mol (3766.6432 without restraints) Performing minimization step: 2836. Total energy = 3766.5369 kcal/mol (3764.8605 without restraints) Performing minimization step: 2837. Total energy = 3764.7559 kcal/mol (3763.0794 without restraints) Performing minimization step: 2838. Total energy = 3762.9762 kcal/mol (3761.2996 without restraints) Performing minimization step: 2839. Total energy = 3761.1979 kcal/mol (3759.5212 without restraints) Performing minimization step: 2840. Total energy = 3759.4211 kcal/mol (3757.7442 without restraints) Performing minimization step: 2841. Total energy = 3757.6456 kcal/mol (3755.9686 without restraints) Performing minimization step: 2842. Total energy = 3755.8716 kcal/mol (3754.1945 without restraints) Performing minimization step: 2843. Total energy = 3754.0990 kcal/mol (3752.4218 without restraints) Performing minimization step: 2844. Total energy = 3752.3278 kcal/mol (3750.6505 without restraints) Performing minimization step: 2845. Total energy = 3750.5580 kcal/mol (3748.8806 without restraints) Performing minimization step: 2846. Total energy = 3748.7897 kcal/mol (3747.1122 without restraints) Performing minimization step: 2847. Total energy = 3747.0227 kcal/mol (3745.3451 without restraints) Performing minimization step: 2848. Total energy = 3745.2572 kcal/mol (3743.5795 without restraints) Performing minimization step: 2849. Total energy = 3743.4931 kcal/mol (3741.8153 without restraints) Performing minimization step: 2850. Total energy = 3741.7304 kcal/mol (3740.0524 without restraints) Performing minimization step: 2851. Total energy = 3739.9691 kcal/mol (3738.2910 without restraints) Performing minimization step: 2852. Total energy = 3738.2094 kcal/mol (3736.5312 without restraints) Performing minimization step: 2853. Total energy = 3736.4509 kcal/mol (3734.7726 without restraints) Performing minimization step: 2854. Total energy = 3734.6938 kcal/mol (3733.0154 without restraints) Performing minimization step: 2855. Total energy = 3732.9380 kcal/mol (3731.2595 without restraints) Performing minimization step: 2856. Total energy = 3731.1837 kcal/mol (3729.5051 without restraints) Performing minimization step: 2857. Total energy = 3729.4307 kcal/mol (3727.7520 without restraints) Performing minimization step: 2858. Total energy = 3727.6791 kcal/mol (3726.0003 without restraints) Performing minimization step: 2859. Total energy = 3725.9289 kcal/mol (3724.2500 without restraints) Performing minimization step: 2860. Total energy = 3724.1801 kcal/mol (3722.5010 without restraints) Performing minimization step: 2861. Total energy = 3722.4328 kcal/mol (3720.7537 without restraints) Performing minimization step: 2862. Total energy = 3720.6868 kcal/mol (3719.0075 without restraints) Performing minimization step: 2863. Total energy = 3718.9420 kcal/mol (3717.2627 without restraints) Performing minimization step: 2864. Total energy = 3717.1987 kcal/mol (3715.5192 without restraints) Performing minimization step: 2865. Total energy = 3715.4567 kcal/mol (3713.7771 without restraints) Performing minimization step: 2866. Total energy = 3713.7161 kcal/mol (3712.0364 without restraints) Performing minimization step: 2867. Total energy = 3711.9768 kcal/mol (3710.2970 without restraints) Performing minimization step: 2868. Total energy = 3710.2389 kcal/mol (3708.5590 without restraints) Performing minimization step: 2869. Total energy = 3708.5023 kcal/mol (3706.8223 without restraints) Performing minimization step: 2870. Total energy = 3706.7671 kcal/mol (3705.0870 without restraints) Performing minimization step: 2871. Total energy = 3705.0333 kcal/mol (3703.3530 without restraints) Performing minimization step: 2872. Total energy = 3703.3008 kcal/mol (3701.6204 without restraints) Performing minimization step: 2873. Total energy = 3701.5696 kcal/mol (3699.8891 without restraints) Performing minimization step: 2874. Total energy = 3699.8398 kcal/mol (3698.1591 without restraints) Performing minimization step: 2875. Total energy = 3698.1112 kcal/mol (3696.4305 without restraints) Performing minimization step: 2876. Total energy = 3696.3841 kcal/mol (3694.7032 without restraints) Performing minimization step: 2877. Total energy = 3694.6582 kcal/mol (3692.9773 without restraints) Performing minimization step: 2878. Total energy = 3692.9337 kcal/mol (3691.2526 without restraints) Performing minimization step: 2879. Total energy = 3691.2106 kcal/mol (3689.5294 without restraints) Performing minimization step: 2880. Total energy = 3689.4887 kcal/mol (3687.8074 without restraints) Performing minimization step: 2881. Total energy = 3687.7682 kcal/mol (3686.0868 without restraints) Performing minimization step: 2882. Total energy = 3686.0490 kcal/mol (3684.3674 without restraints) Performing minimization step: 2883. Total energy = 3684.3311 kcal/mol (3682.6494 without restraints) Performing minimization step: 2884. Total energy = 3682.6146 kcal/mol (3680.9328 without restraints) Performing minimization step: 2885. Total energy = 3680.8994 kcal/mol (3679.2175 without restraints) Performing minimization step: 2886. Total energy = 3679.1854 kcal/mol (3677.5034 without restraints) Performing minimization step: 2887. Total energy = 3677.4728 kcal/mol (3675.7906 without restraints) Performing minimization step: 2888. Total energy = 3675.7615 kcal/mol (3674.0792 without restraints) Performing minimization step: 2889. Total energy = 3674.0514 kcal/mol (3672.3690 without restraints) Performing minimization step: 2890. Total energy = 3672.3427 kcal/mol (3670.6602 without restraints) Performing minimization step: 2891. Total energy = 3670.6355 kcal/mol (3668.9528 without restraints) Performing minimization step: 2892. Total energy = 3668.9293 kcal/mol (3667.2466 without restraints) Performing minimization step: 2893. Total energy = 3667.2245 kcal/mol (3665.5416 without restraints) Performing minimization step: 2894. Total energy = 3665.5209 kcal/mol (3663.8379 without restraints) Performing minimization step: 2895. Total energy = 3663.8187 kcal/mol (3662.1355 without restraints) Performing minimization step: 2896. Total energy = 3662.1177 kcal/mol (3660.4344 without restraints) Performing minimization step: 2897. Total energy = 3660.4180 kcal/mol (3658.7346 without restraints) Performing minimization step: 2898. Total energy = 3658.7195 kcal/mol (3657.0361 without restraints) Performing minimization step: 2899. Total energy = 3657.0224 kcal/mol (3655.3388 without restraints) Performing minimization step: 2900. Total energy = 3655.3265 kcal/mol (3653.6428 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 2901. Total energy = 3653.6322 kcal/mol (3651.9483 without restraints) Performing minimization step: 2902. Total energy = 3651.9388 kcal/mol (3650.2549 without restraints) Performing minimization step: 2903. Total energy = 3650.2465 kcal/mol (3648.5625 without restraints) Performing minimization step: 2904. Total energy = 3648.5557 kcal/mol (3646.8715 without restraints) Performing minimization step: 2905. Total energy = 3646.8660 kcal/mol (3645.1817 without restraints) Performing minimization step: 2906. Total energy = 3645.1777 kcal/mol (3643.4933 without restraints) Performing minimization step: 2907. Total energy = 3643.4907 kcal/mol (3641.8062 without restraints) Performing minimization step: 2908. Total energy = 3641.8050 kcal/mol (3640.1203 without restraints) Performing minimization step: 2909. Total energy = 3640.1205 kcal/mol (3638.4357 without restraints) Performing minimization step: 2910. Total energy = 3638.4374 kcal/mol (3636.7525 without restraints) Performing minimization step: 2911. Total energy = 3636.7554 kcal/mol (3635.0703 without restraints) Performing minimization step: 2912. Total energy = 3635.0746 kcal/mol (3633.3894 without restraints) Performing minimization step: 2913. Total energy = 3633.3951 kcal/mol (3631.7098 without restraints) Performing minimization step: 2914. Total energy = 3631.7168 kcal/mol (3630.0314 without restraints) Performing minimization step: 2915. Total energy = 3630.0398 kcal/mol (3628.3542 without restraints) Performing minimization step: 2916. Total energy = 3628.3639 kcal/mol (3626.6783 without restraints) Performing minimization step: 2917. Total energy = 3626.6894 kcal/mol (3625.0036 without restraints) Performing minimization step: 2918. Total energy = 3625.0162 kcal/mol (3623.3303 without restraints) Performing minimization step: 2919. Total energy = 3623.3441 kcal/mol (3621.6580 without restraints) Performing minimization step: 2920. Total energy = 3621.6732 kcal/mol (3619.9870 without restraints) Performing minimization step: 2921. Total energy = 3620.0035 kcal/mol (3618.3172 without restraints) Performing minimization step: 2922. Total energy = 3618.3351 kcal/mol (3616.6487 without restraints) Performing minimization step: 2923. Total energy = 3616.6681 kcal/mol (3614.9815 without restraints) Performing minimization step: 2924. Total energy = 3615.0020 kcal/mol (3613.3153 without restraints) Performing minimization step: 2925. Total energy = 3613.3372 kcal/mol (3611.6504 without restraints) Performing minimization step: 2926. Total energy = 3611.6736 kcal/mol (3609.9867 without restraints) Performing minimization step: 2927. Total energy = 3610.0112 kcal/mol (3608.3242 without restraints) Performing minimization step: 2928. Total energy = 3608.3501 kcal/mol (3606.6629 without restraints) Performing minimization step: 2929. Total energy = 3606.6901 kcal/mol (3605.0028 without restraints) Performing minimization step: 2930. Total energy = 3605.0313 kcal/mol (3603.3439 without restraints) Performing minimization step: 2931. Total energy = 3603.3737 kcal/mol (3601.6862 without restraints) Performing minimization step: 2932. Total energy = 3601.7174 kcal/mol (3600.0297 without restraints) Performing minimization step: 2933. Total energy = 3600.0622 kcal/mol (3598.3743 without restraints) Performing minimization step: 2934. Total energy = 3598.4082 kcal/mol (3596.7202 without restraints) Performing minimization step: 2935. Total energy = 3596.7554 kcal/mol (3595.0673 without restraints) Performing minimization step: 2936. Total energy = 3595.1038 kcal/mol (3593.4155 without restraints) Performing minimization step: 2937. Total energy = 3593.4533 kcal/mol (3591.7650 without restraints) Performing minimization step: 2938. Total energy = 3591.8041 kcal/mol (3590.1156 without restraints) Performing minimization step: 2939. Total energy = 3590.1560 kcal/mol (3588.4674 without restraints) Performing minimization step: 2940. Total energy = 3588.5091 kcal/mol (3586.8204 without restraints) Performing minimization step: 2941. Total energy = 3586.8634 kcal/mol (3585.1746 without restraints) Performing minimization step: 2942. Total energy = 3585.2189 kcal/mol (3583.5299 without restraints) Performing minimization step: 2943. Total energy = 3583.5755 kcal/mol (3581.8864 without restraints) Performing minimization step: 2944. Total energy = 3581.9336 kcal/mol (3580.2443 without restraints) Performing minimization step: 2945. Total energy = 3580.2927 kcal/mol (3578.6033 without restraints) Performing minimization step: 2946. Total energy = 3578.6528 kcal/mol (3576.9633 without restraints) Performing minimization step: 2947. Total energy = 3577.0141 kcal/mol (3575.3244 without restraints) Performing minimization step: 2948. Total energy = 3575.3765 kcal/mol (3573.6867 without restraints) Performing minimization step: 2949. Total energy = 3573.7401 kcal/mol (3572.0502 without restraints) Performing minimization step: 2950. Total energy = 3572.1049 kcal/mol (3570.4149 without restraints) Performing minimization step: 2951. Total energy = 3570.4708 kcal/mol (3568.7806 without restraints) Performing minimization step: 2952. Total energy = 3568.8379 kcal/mol (3567.1476 without restraints) Performing minimization step: 2953. Total energy = 3567.2061 kcal/mol (3565.5157 without restraints) Performing minimization step: 2954. Total energy = 3565.5755 kcal/mol (3563.8849 without restraints) Performing minimization step: 2955. Total energy = 3563.9460 kcal/mol (3562.2553 without restraints) Performing minimization step: 2956. Total energy = 3562.3176 kcal/mol (3560.6268 without restraints) Performing minimization step: 2957. Total energy = 3560.6904 kcal/mol (3558.9994 without restraints) Performing minimization step: 2958. Total energy = 3559.0643 kcal/mol (3557.3732 without restraints) Performing minimization step: 2959. Total energy = 3557.4394 kcal/mol (3555.7481 without restraints) Performing minimization step: 2960. Total energy = 3555.8156 kcal/mol (3554.1242 without restraints) Performing minimization step: 2961. Total energy = 3554.1929 kcal/mol (3552.5014 without restraints) Performing minimization step: 2962. Total energy = 3552.5713 kcal/mol (3550.8797 without restraints) Performing minimization step: 2963. Total energy = 3550.9509 kcal/mol (3549.2591 without restraints) Performing minimization step: 2964. Total energy = 3549.3316 kcal/mol (3547.6397 without restraints) Performing minimization step: 2965. Total energy = 3547.7134 kcal/mol (3546.0214 without restraints) Performing minimization step: 2966. Total energy = 3546.0964 kcal/mol (3544.4042 without restraints) Performing minimization step: 2967. Total energy = 3544.4804 kcal/mol (3542.7881 without restraints) Performing minimization step: 2968. Total energy = 3542.8658 kcal/mol (3541.1733 without restraints) Performing minimization step: 2969. Total energy = 3541.2523 kcal/mol (3539.5597 without restraints) Performing minimization step: 2970. Total energy = 3539.6397 kcal/mol (3537.9470 without restraints) Performing minimization step: 2971. Total energy = 3538.0282 kcal/mol (3536.3353 without restraints) Performing minimization step: 2972. Total energy = 3536.4178 kcal/mol (3534.7248 without restraints) Performing minimization step: 2973. Total energy = 3534.8084 kcal/mol (3533.1153 without restraints) Performing minimization step: 2974. Total energy = 3533.2002 kcal/mol (3531.5070 without restraints) Performing minimization step: 2975. Total energy = 3531.5931 kcal/mol (3529.8998 without restraints) Performing minimization step: 2976. Total energy = 3529.9872 kcal/mol (3528.2937 without restraints) Performing minimization step: 2977. Total energy = 3528.3823 kcal/mol (3526.6886 without restraints) Performing minimization step: 2978. Total energy = 3526.7784 kcal/mol (3525.0847 without restraints) Performing minimization step: 2979. Total energy = 3525.1758 kcal/mol (3523.4819 without restraints) Performing minimization step: 2980. Total energy = 3523.5741 kcal/mol (3521.8801 without restraints) Performing minimization step: 2981. Total energy = 3521.9736 kcal/mol (3520.2794 without restraints) Performing minimization step: 2982. Total energy = 3520.3741 kcal/mol (3518.6797 without restraints) Performing minimization step: 2983. Total energy = 3518.7756 kcal/mol (3517.0812 without restraints) Performing minimization step: 2984. Total energy = 3517.1783 kcal/mol (3515.4837 without restraints) Performing minimization step: 2985. Total energy = 3515.5821 kcal/mol (3513.8873 without restraints) Performing minimization step: 2986. Total energy = 3513.9869 kcal/mol (3512.2920 without restraints) Performing minimization step: 2987. Total energy = 3512.3928 kcal/mol (3510.6978 without restraints) Performing minimization step: 2988. Total energy = 3510.7998 kcal/mol (3509.1046 without restraints) Performing minimization step: 2989. Total energy = 3509.2078 kcal/mol (3507.5125 without restraints) Performing minimization step: 2990. Total energy = 3507.6169 kcal/mol (3505.9215 without restraints) Performing minimization step: 2991. Total energy = 3506.0271 kcal/mol (3504.3315 without restraints) Performing minimization step: 2992. Total energy = 3504.4383 kcal/mol (3502.7426 without restraints) Performing minimization step: 2993. Total energy = 3502.8507 kcal/mol (3501.1550 without restraints) Performing minimization step: 2994. Total energy = 3501.2642 kcal/mol (3499.5682 without restraints) Performing minimization step: 2995. Total energy = 3499.6786 kcal/mol (3497.9825 without restraints) Performing minimization step: 2996. Total energy = 3498.0940 kcal/mol (3496.3978 without restraints) Performing minimization step: 2997. Total energy = 3496.5105 kcal/mol (3494.8141 without restraints) Performing minimization step: 2998. Total energy = 3494.9281 kcal/mol (3493.2315 without restraints) Performing minimization step: 2999. Total energy = 3493.3467 kcal/mol (3491.6500 without restraints) Performing minimization step: 3000. Total energy = 3491.7663 kcal/mol (3490.0695 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 3001. Total energy = 3490.1870 kcal/mol (3488.4900 without restraints) Performing minimization step: 3002. Total energy = 3488.6087 kcal/mol (3486.9116 without restraints) Performing minimization step: 3003. Total energy = 3487.0315 kcal/mol (3485.3342 without restraints) Performing minimization step: 3004. Total energy = 3485.4553 kcal/mol (3483.7579 without restraints) Performing minimization step: 3005. Total energy = 3483.8801 kcal/mol (3482.1826 without restraints) Performing minimization step: 3006. Total energy = 3482.3059 kcal/mol (3480.6083 without restraints) Performing minimization step: 3007. Total energy = 3480.7328 kcal/mol (3479.0350 without restraints) Performing minimization step: 3008. Total energy = 3479.1607 kcal/mol (3477.4628 without restraints) Performing minimization step: 3009. Total energy = 3477.5897 kcal/mol (3475.8916 without restraints) Performing minimization step: 3010. Total energy = 3476.0199 kcal/mol (3474.3217 without restraints) Performing minimization step: 3011. Total energy = 3474.4508 kcal/mol (3472.7525 without restraints) Performing minimization step: 3012. Total energy = 3472.8828 kcal/mol (3471.1844 without restraints) Performing minimization step: 3013. Total energy = 3471.3159 kcal/mol (3469.6172 without restraints) Performing minimization step: 3014. Total energy = 3469.7499 kcal/mol (3468.0511 without restraints) Performing minimization step: 3015. Total energy = 3468.1849 kcal/mol (3466.4860 without restraints) Performing minimization step: 3016. Total energy = 3466.6210 kcal/mol (3464.9219 without restraints) Performing minimization step: 3017. Total energy = 3465.0580 kcal/mol (3463.3589 without restraints) Performing minimization step: 3018. Total energy = 3463.4961 kcal/mol (3461.7968 without restraints) Performing minimization step: 3019. Total energy = 3461.9352 kcal/mol (3460.2357 without restraints) Performing minimization step: 3020. Total energy = 3460.3753 kcal/mol (3458.6757 without restraints) Performing minimization step: 3021. Total energy = 3458.8164 kcal/mol (3457.1166 without restraints) Performing minimization step: 3022. Total energy = 3457.2584 kcal/mol (3455.5585 without restraints) Performing minimization step: 3023. Total energy = 3455.7015 kcal/mol (3454.0015 without restraints) Performing minimization step: 3024. Total energy = 3454.1456 kcal/mol (3452.4454 without restraints) Performing minimization step: 3025. Total energy = 3452.5907 kcal/mol (3450.8905 without restraints) Performing minimization step: 3026. Total energy = 3451.0372 kcal/mol (3449.3368 without restraints) Performing minimization step: 3027. Total energy = 3449.4843 kcal/mol (3447.7837 without restraints) Performing minimization step: 3028. Total energy = 3447.9324 kcal/mol (3446.2316 without restraints) Performing minimization step: 3029. Total energy = 3446.3813 kcal/mol (3444.6805 without restraints) Performing minimization step: 3030. Total energy = 3444.8313 kcal/mol (3443.1303 without restraints) Performing minimization step: 3031. Total energy = 3443.2823 kcal/mol (3441.5811 without restraints) Performing minimization step: 3032. Total energy = 3441.7344 kcal/mol (3440.0331 without restraints) Performing minimization step: 3033. Total energy = 3440.1873 kcal/mol (3438.4859 without restraints) Performing minimization step: 3034. Total energy = 3438.6412 kcal/mol (3436.9396 without restraints) Performing minimization step: 3035. Total energy = 3437.0961 kcal/mol (3435.3943 without restraints) Performing minimization step: 3036. Total energy = 3435.5519 kcal/mol (3433.8500 without restraints) Performing minimization step: 3037. Total energy = 3434.0087 kcal/mol (3432.3067 without restraints) Performing minimization step: 3038. Total energy = 3432.4664 kcal/mol (3430.7643 without restraints) Performing minimization step: 3039. Total energy = 3430.9252 kcal/mol (3429.2228 without restraints) Performing minimization step: 3040. Total energy = 3429.3848 kcal/mol (3427.6824 without restraints) Performing minimization step: 3041. Total energy = 3427.8455 kcal/mol (3426.1429 without restraints) Performing minimization step: 3042. Total energy = 3426.3071 kcal/mol (3424.6043 without restraints) Performing minimization step: 3043. Total energy = 3424.7696 kcal/mol (3423.0667 without restraints) Performing minimization step: 3044. Total energy = 3423.2331 kcal/mol (3421.5301 without restraints) Performing minimization step: 3045. Total energy = 3421.6976 kcal/mol (3419.9944 without restraints) Performing minimization step: 3046. Total energy = 3420.1631 kcal/mol (3418.4599 without restraints) Performing minimization step: 3047. Total energy = 3418.6296 kcal/mol (3416.9262 without restraints) Performing minimization step: 3048. Total energy = 3417.0969 kcal/mol (3415.3933 without restraints) Performing minimization step: 3049. Total energy = 3415.5652 kcal/mol (3413.8614 without restraints) Performing minimization step: 3050. Total energy = 3414.0344 kcal/mol (3412.3305 without restraints) Performing minimization step: 3051. Total energy = 3412.5045 kcal/mol (3410.8004 without restraints) Performing minimization step: 3052. Total energy = 3410.9755 kcal/mol (3409.2714 without restraints) Performing minimization step: 3053. Total energy = 3409.4476 kcal/mol (3407.7432 without restraints) Performing minimization step: 3054. Total energy = 3407.9205 kcal/mol (3406.2160 without restraints) Performing minimization step: 3055. Total energy = 3406.3944 kcal/mol (3404.6897 without restraints) Performing minimization step: 3056. Total energy = 3404.8692 kcal/mol (3403.1644 without restraints) Performing minimization step: 3057. Total energy = 3403.3449 kcal/mol (3401.6400 without restraints) Performing minimization step: 3058. Total energy = 3401.8215 kcal/mol (3400.1165 without restraints) Performing minimization step: 3059. Total energy = 3400.2991 kcal/mol (3398.5939 without restraints) Performing minimization step: 3060. Total energy = 3398.7776 kcal/mol (3397.0722 without restraints) Performing minimization step: 3061. Total energy = 3397.2570 kcal/mol (3395.5515 without restraints) Performing minimization step: 3062. Total energy = 3395.7374 kcal/mol (3394.0317 without restraints) Performing minimization step: 3063. Total energy = 3394.2186 kcal/mol (3392.5129 without restraints) Performing minimization step: 3064. Total energy = 3392.7008 kcal/mol (3390.9949 without restraints) Performing minimization step: 3065. Total energy = 3391.1839 kcal/mol (3389.4778 without restraints) Performing minimization step: 3066. Total energy = 3389.6679 kcal/mol (3387.9617 without restraints) Performing minimization step: 3067. Total energy = 3388.1528 kcal/mol (3386.4464 without restraints) Performing minimization step: 3068. Total energy = 3386.6386 kcal/mol (3384.9321 without restraints) Performing minimization step: 3069. Total energy = 3385.1253 kcal/mol (3383.4186 without restraints) Performing minimization step: 3070. Total energy = 3383.6129 kcal/mol (3381.9061 without restraints) Performing minimization step: 3071. Total energy = 3382.1014 kcal/mol (3380.3945 without restraints) Performing minimization step: 3072. Total energy = 3380.5909 kcal/mol (3378.8838 without restraints) Performing minimization step: 3073. Total energy = 3379.0812 kcal/mol (3377.3739 without restraints) Performing minimization step: 3074. Total energy = 3377.5724 kcal/mol (3375.8650 without restraints) Performing minimization step: 3075. Total energy = 3376.0645 kcal/mol (3374.3569 without restraints) Performing minimization step: 3076. Total energy = 3374.5575 kcal/mol (3372.8498 without restraints) Performing minimization step: 3077. Total energy = 3373.0514 kcal/mol (3371.3435 without restraints) Performing minimization step: 3078. Total energy = 3371.5462 kcal/mol (3369.8382 without restraints) Performing minimization step: 3079. Total energy = 3370.0418 kcal/mol (3368.3337 without restraints) Performing minimization step: 3080. Total energy = 3368.5384 kcal/mol (3366.8301 without restraints) Performing minimization step: 3081. Total energy = 3367.0358 kcal/mol (3365.3274 without restraints) Performing minimization step: 3082. Total energy = 3365.5343 kcal/mol (3363.8257 without restraints) Performing minimization step: 3083. Total energy = 3364.0335 kcal/mol (3362.3248 without restraints) Performing minimization step: 3084. Total energy = 3362.5335 kcal/mol (3360.8247 without restraints) Performing minimization step: 3085. Total energy = 3361.0345 kcal/mol (3359.3255 without restraints) Performing minimization step: 3086. Total energy = 3359.5363 kcal/mol (3357.8272 without restraints) Performing minimization step: 3087. Total energy = 3358.0390 kcal/mol (3356.3297 without restraints) Performing minimization step: 3088. Total energy = 3356.5428 kcal/mol (3354.8333 without restraints) Performing minimization step: 3089. Total energy = 3355.0472 kcal/mol (3353.3376 without restraints) Performing minimization step: 3090. Total energy = 3353.5525 kcal/mol (3351.8427 without restraints) Performing minimization step: 3091. Total energy = 3352.0586 kcal/mol (3350.3487 without restraints) Performing minimization step: 3092. Total energy = 3350.5656 kcal/mol (3348.8556 without restraints) Performing minimization step: 3093. Total energy = 3349.0735 kcal/mol (3347.3633 without restraints) Performing minimization step: 3094. Total energy = 3347.5820 kcal/mol (3345.8717 without restraints) Performing minimization step: 3095. Total energy = 3346.0917 kcal/mol (3344.3812 without restraints) Performing minimization step: 3096. Total energy = 3344.6021 kcal/mol (3342.8915 without restraints) Performing minimization step: 3097. Total energy = 3343.1135 kcal/mol (3341.4027 without restraints) Performing minimization step: 3098. Total energy = 3341.6256 kcal/mol (3339.9147 without restraints) Performing minimization step: 3099. Total energy = 3340.1386 kcal/mol (3338.4275 without restraints) Performing minimization step: 3100. Total energy = 3338.6525 kcal/mol (3336.9412 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 3101. Total energy = 3337.1672 kcal/mol (3335.4558 without restraints) Performing minimization step: 3102. Total energy = 3335.6827 kcal/mol (3333.9712 without restraints) Performing minimization step: 3103. Total energy = 3334.1991 kcal/mol (3332.4874 without restraints) Performing minimization step: 3104. Total energy = 3332.7163 kcal/mol (3331.0045 without restraints) Performing minimization step: 3105. Total energy = 3331.2344 kcal/mol (3329.5224 without restraints) Performing minimization step: 3106. Total energy = 3329.7533 kcal/mol (3328.0412 without restraints) Performing minimization step: 3107. Total energy = 3328.2731 kcal/mol (3326.5608 without restraints) Performing minimization step: 3108. Total energy = 3326.7936 kcal/mol (3325.0812 without restraints) Performing minimization step: 3109. Total energy = 3325.3151 kcal/mol (3323.6025 without restraints) Performing minimization step: 3110. Total energy = 3323.8373 kcal/mol (3322.1246 without restraints) Performing minimization step: 3111. Total energy = 3322.3604 kcal/mol (3320.6475 without restraints) Performing minimization step: 3112. Total energy = 3320.8842 kcal/mol (3319.1712 without restraints) Performing minimization step: 3113. Total energy = 3319.4091 kcal/mol (3317.6960 without restraints) Performing minimization step: 3114. Total energy = 3317.9349 kcal/mol (3316.2216 without restraints) Performing minimization step: 3115. Total energy = 3316.4612 kcal/mol (3314.7478 without restraints) Performing minimization step: 3116. Total energy = 3314.9884 kcal/mol (3313.2748 without restraints) Performing minimization step: 3117. Total energy = 3313.5164 kcal/mol (3311.8027 without restraints) Performing minimization step: 3118. Total energy = 3312.0452 kcal/mol (3310.3313 without restraints) Performing minimization step: 3119. Total energy = 3310.5749 kcal/mol (3308.8608 without restraints) Performing minimization step: 3120. Total energy = 3309.1056 kcal/mol (3307.3914 without restraints) Performing minimization step: 3121. Total energy = 3307.6368 kcal/mol (3305.9225 without restraints) Performing minimization step: 3122. Total energy = 3306.1686 kcal/mol (3304.4541 without restraints) Performing minimization step: 3123. Total energy = 3304.7015 kcal/mol (3302.9869 without restraints) Performing minimization step: 3124. Total energy = 3303.2352 kcal/mol (3301.5204 without restraints) Performing minimization step: 3125. Total energy = 3301.7697 kcal/mol (3300.0547 without restraints) Performing minimization step: 3126. Total energy = 3300.3050 kcal/mol (3298.5899 without restraints) Performing minimization step: 3127. Total energy = 3298.8411 kcal/mol (3297.1258 without restraints) Performing minimization step: 3128. Total energy = 3297.3779 kcal/mol (3295.6625 without restraints) Performing minimization step: 3129. Total energy = 3295.9156 kcal/mol (3294.2001 without restraints) Performing minimization step: 3130. Total energy = 3294.4541 kcal/mol (3292.7384 without restraints) Performing minimization step: 3131. Total energy = 3292.9934 kcal/mol (3291.2775 without restraints) Performing minimization step: 3132. Total energy = 3291.5335 kcal/mol (3289.8175 without restraints) Performing minimization step: 3133. Total energy = 3290.0743 kcal/mol (3288.3582 without restraints) Performing minimization step: 3134. Total energy = 3288.6160 kcal/mol (3286.8997 without restraints) Performing minimization step: 3135. Total energy = 3287.1583 kcal/mol (3285.4417 without restraints) Performing minimization step: 3136. Total energy = 3285.7014 kcal/mol (3283.9848 without restraints) Performing minimization step: 3137. Total energy = 3284.2454 kcal/mol (3282.5287 without restraints) Performing minimization step: 3138. Total energy = 3282.7902 kcal/mol (3281.0733 without restraints) Performing minimization step: 3139. Total energy = 3281.3358 kcal/mol (3279.6187 without restraints) Performing minimization step: 3140. Total energy = 3279.8821 kcal/mol (3278.1649 without restraints) Performing minimization step: 3141. Total energy = 3278.4293 kcal/mol (3276.7119 without restraints) Performing minimization step: 3142. Total energy = 3276.9771 kcal/mol (3275.2595 without restraints) Performing minimization step: 3143. Total energy = 3275.5257 kcal/mol (3273.8080 without restraints) Performing minimization step: 3144. Total energy = 3274.0751 kcal/mol (3272.3573 without restraints) Performing minimization step: 3145. Total energy = 3272.6253 kcal/mol (3270.9074 without restraints) Performing minimization step: 3146. Total energy = 3271.1763 kcal/mol (3269.4582 without restraints) Performing minimization step: 3147. Total energy = 3269.7281 kcal/mol (3268.0098 without restraints) Performing minimization step: 3148. Total energy = 3268.2804 kcal/mol (3266.5620 without restraints) Performing minimization step: 3149. Total energy = 3266.8337 kcal/mol (3265.1152 without restraints) Performing minimization step: 3150. Total energy = 3265.3877 kcal/mol (3263.6690 without restraints) Performing minimization step: 3151. Total energy = 3263.9426 kcal/mol (3262.2237 without restraints) Performing minimization step: 3152. Total energy = 3262.4977 kcal/mol (3260.7787 without restraints) Performing minimization step: 3153. Total energy = 3261.0540 kcal/mol (3259.3349 without restraints) Performing minimization step: 3154. Total energy = 3259.6111 kcal/mol (3257.8918 without restraints) Performing minimization step: 3155. Total energy = 3258.1690 kcal/mol (3256.4495 without restraints) Performing minimization step: 3156. Total energy = 3256.7276 kcal/mol (3255.0080 without restraints) Performing minimization step: 3157. Total energy = 3255.2869 kcal/mol (3253.5672 without restraints) Performing minimization step: 3158. Total energy = 3253.8470 kcal/mol (3252.1271 without restraints) Performing minimization step: 3159. Total energy = 3252.4078 kcal/mol (3250.6878 without restraints) Performing minimization step: 3160. Total energy = 3250.9694 kcal/mol (3249.2492 without restraints) Performing minimization step: 3161. Total energy = 3249.5320 kcal/mol (3247.8116 without restraints) Performing minimization step: 3162. Total energy = 3248.0951 kcal/mol (3246.3746 without restraints) Performing minimization step: 3163. Total energy = 3246.6589 kcal/mol (3244.9382 without restraints) Performing minimization step: 3164. Total energy = 3245.2235 kcal/mol (3243.5027 without restraints) Performing minimization step: 3165. Total energy = 3243.7888 kcal/mol (3242.0678 without restraints) Performing minimization step: 3166. Total energy = 3242.3549 kcal/mol (3240.6338 without restraints) Performing minimization step: 3167. Total energy = 3240.9217 kcal/mol (3239.2004 without restraints) Performing minimization step: 3168. Total energy = 3239.4892 kcal/mol (3237.7678 without restraints) Performing minimization step: 3169. Total energy = 3238.0575 kcal/mol (3236.3361 without restraints) Performing minimization step: 3170. Total energy = 3236.6266 kcal/mol (3234.9050 without restraints) Performing minimization step: 3171. Total energy = 3235.1965 kcal/mol (3233.4748 without restraints) Performing minimization step: 3172. Total energy = 3233.7671 kcal/mol (3232.0451 without restraints) Performing minimization step: 3173. Total energy = 3232.3382 kcal/mol (3230.6161 without restraints) Performing minimization step: 3174. Total energy = 3230.9101 kcal/mol (3229.1878 without restraints) Performing minimization step: 3175. Total energy = 3229.4827 kcal/mol (3227.7603 without restraints) Performing minimization step: 3176. Total energy = 3228.0561 kcal/mol (3226.3335 without restraints) Performing minimization step: 3177. Total energy = 3226.6301 kcal/mol (3224.9074 without restraints) Performing minimization step: 3178. Total energy = 3225.2049 kcal/mol (3223.4820 without restraints) Performing minimization step: 3179. Total energy = 3223.7804 kcal/mol (3222.0573 without restraints) Performing minimization step: 3180. Total energy = 3222.3568 kcal/mol (3220.6336 without restraints) Performing minimization step: 3181. Total energy = 3220.9338 kcal/mol (3219.2104 without restraints) Performing minimization step: 3182. Total energy = 3219.5114 kcal/mol (3217.7879 without restraints) Performing minimization step: 3183. Total energy = 3218.0898 kcal/mol (3216.3661 without restraints) Performing minimization step: 3184. Total energy = 3216.6688 kcal/mol (3214.9450 without restraints) Performing minimization step: 3185. Total energy = 3215.2486 kcal/mol (3213.5246 without restraints) Performing minimization step: 3186. Total energy = 3213.8291 kcal/mol (3212.1050 without restraints) Performing minimization step: 3187. Total energy = 3212.4102 kcal/mol (3210.6860 without restraints) Performing minimization step: 3188. Total energy = 3210.9921 kcal/mol (3209.2677 without restraints) Performing minimization step: 3189. Total energy = 3209.5747 kcal/mol (3207.8502 without restraints) Performing minimization step: 3190. Total energy = 3208.1580 kcal/mol (3206.4333 without restraints) Performing minimization step: 3191. Total energy = 3206.7421 kcal/mol (3205.0172 without restraints) Performing minimization step: 3192. Total energy = 3205.3268 kcal/mol (3203.6017 without restraints) Performing minimization step: 3193. Total energy = 3203.9121 kcal/mol (3202.1870 without restraints) Performing minimization step: 3194. Total energy = 3202.4982 kcal/mol (3200.7729 without restraints) Performing minimization step: 3195. Total energy = 3201.0850 kcal/mol (3199.3595 without restraints) Performing minimization step: 3196. Total energy = 3199.6726 kcal/mol (3197.9471 without restraints) Performing minimization step: 3197. Total energy = 3198.2609 kcal/mol (3196.5351 without restraints) Performing minimization step: 3198. Total energy = 3196.8499 kcal/mol (3195.1240 without restraints) Performing minimization step: 3199. Total energy = 3195.4397 kcal/mol (3193.7136 without restraints) Performing minimization step: 3200. Total energy = 3194.0299 kcal/mol (3192.3037 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 3201. Total energy = 3192.6208 kcal/mol (3190.8944 without restraints) Performing minimization step: 3202. Total energy = 3191.2124 kcal/mol (3189.4858 without restraints) Performing minimization step: 3203. Total energy = 3189.8048 kcal/mol (3188.0782 without restraints) Performing minimization step: 3204. Total energy = 3188.3978 kcal/mol (3186.6710 without restraints) Performing minimization step: 3205. Total energy = 3186.9915 kcal/mol (3185.2645 without restraints) Performing minimization step: 3206. Total energy = 3185.5858 kcal/mol (3183.8586 without restraints) Performing minimization step: 3207. Total energy = 3184.1807 kcal/mol (3182.4535 without restraints) Performing minimization step: 3208. Total energy = 3182.7764 kcal/mol (3181.0490 without restraints) Performing minimization step: 3209. Total energy = 3181.3727 kcal/mol (3179.6451 without restraints) Performing minimization step: 3210. Total energy = 3179.9698 kcal/mol (3178.2422 without restraints) Performing minimization step: 3211. Total energy = 3178.5676 kcal/mol (3176.8397 without restraints) Performing minimization step: 3212. Total energy = 3177.1661 kcal/mol (3175.4381 without restraints) Performing minimization step: 3213. Total energy = 3175.7653 kcal/mol (3174.0372 without restraints) Performing minimization step: 3214. Total energy = 3174.3650 kcal/mol (3172.6367 without restraints) Performing minimization step: 3215. Total energy = 3172.9653 kcal/mol (3171.2369 without restraints) Performing minimization step: 3216. Total energy = 3171.5663 kcal/mol (3169.8377 without restraints) Performing minimization step: 3217. Total energy = 3170.1680 kcal/mol (3168.4392 without restraints) Performing minimization step: 3218. Total energy = 3168.7703 kcal/mol (3167.0414 without restraints) Performing minimization step: 3219. Total energy = 3167.3736 kcal/mol (3165.6445 without restraints) Performing minimization step: 3220. Total energy = 3165.9773 kcal/mol (3164.2480 without restraints) Performing minimization step: 3221. Total energy = 3164.5816 kcal/mol (3162.8522 without restraints) Performing minimization step: 3222. Total energy = 3163.1865 kcal/mol (3161.4570 without restraints) Performing minimization step: 3223. Total energy = 3161.7921 kcal/mol (3160.0625 without restraints) Performing minimization step: 3224. Total energy = 3160.3984 kcal/mol (3158.6686 without restraints) Performing minimization step: 3225. Total energy = 3159.0053 kcal/mol (3157.2753 without restraints) Performing minimization step: 3226. Total energy = 3157.6129 kcal/mol (3155.8828 without restraints) Performing minimization step: 3227. Total energy = 3156.2211 kcal/mol (3154.4908 without restraints) Performing minimization step: 3228. Total energy = 3154.8299 kcal/mol (3153.0995 without restraints) Performing minimization step: 3229. Total energy = 3153.4394 kcal/mol (3151.7089 without restraints) Performing minimization step: 3230. Total energy = 3152.0496 kcal/mol (3150.3189 without restraints) Performing minimization step: 3231. Total energy = 3150.6604 kcal/mol (3148.9295 without restraints) Performing minimization step: 3232. Total energy = 3149.2720 kcal/mol (3147.5410 without restraints) Performing minimization step: 3233. Total energy = 3147.8841 kcal/mol (3146.1530 without restraints) Performing minimization step: 3234. Total energy = 3146.4968 kcal/mol (3144.7655 without restraints) Performing minimization step: 3235. Total energy = 3145.1102 kcal/mol (3143.3787 without restraints) Performing minimization step: 3236. Total energy = 3143.7241 kcal/mol (3141.9925 without restraints) Performing minimization step: 3237. Total energy = 3142.3388 kcal/mol (3140.6070 without restraints) Performing minimization step: 3238. Total energy = 3140.9540 kcal/mol (3139.2221 without restraints) Performing minimization step: 3239. Total energy = 3139.5699 kcal/mol (3137.8378 without restraints) Performing minimization step: 3240. Total energy = 3138.1864 kcal/mol (3136.4542 without restraints) Performing minimization step: 3241. Total energy = 3136.8035 kcal/mol (3135.0712 without restraints) Performing minimization step: 3242. Total energy = 3135.4213 kcal/mol (3133.6888 without restraints) Performing minimization step: 3243. Total energy = 3134.0397 kcal/mol (3132.3070 without restraints) Performing minimization step: 3244. Total energy = 3132.6587 kcal/mol (3130.9259 without restraints) Performing minimization step: 3245. Total energy = 3131.2784 kcal/mol (3129.5454 without restraints) Performing minimization step: 3246. Total energy = 3129.8986 kcal/mol (3128.1655 without restraints) Performing minimization step: 3247. Total energy = 3128.5195 kcal/mol (3126.7863 without restraints) Performing minimization step: 3248. Total energy = 3127.1410 kcal/mol (3125.4076 without restraints) Performing minimization step: 3249. Total energy = 3125.7632 kcal/mol (3124.0296 without restraints) Performing minimization step: 3250. Total energy = 3124.3859 kcal/mol (3122.6522 without restraints) Performing minimization step: 3251. Total energy = 3123.0093 kcal/mol (3121.2754 without restraints) Performing minimization step: 3252. Total energy = 3121.6332 kcal/mol (3119.8993 without restraints) Performing minimization step: 3253. Total energy = 3120.2580 kcal/mol (3118.5239 without restraints) Performing minimization step: 3254. Total energy = 3118.8832 kcal/mol (3117.1490 without restraints) Performing minimization step: 3255. Total energy = 3117.5090 kcal/mol (3115.7746 without restraints) Performing minimization step: 3256. Total energy = 3116.1355 kcal/mol (3114.4009 without restraints) Performing minimization step: 3257. Total energy = 3114.7625 kcal/mol (3113.0278 without restraints) Performing minimization step: 3258. Total energy = 3113.3901 kcal/mol (3111.6553 without restraints) Performing minimization step: 3259. Total energy = 3112.0184 kcal/mol (3110.2834 without restraints) Performing minimization step: 3260. Total energy = 3110.6472 kcal/mol (3108.9121 without restraints) Performing minimization step: 3261. Total energy = 3109.2767 kcal/mol (3107.5414 without restraints) Performing minimization step: 3262. Total energy = 3107.9067 kcal/mol (3106.1713 without restraints) Performing minimization step: 3263. Total energy = 3106.5374 kcal/mol (3104.8018 without restraints) Performing minimization step: 3264. Total energy = 3105.1686 kcal/mol (3103.4329 without restraints) Performing minimization step: 3265. Total energy = 3103.8006 kcal/mol (3102.0646 without restraints) Performing minimization step: 3266. Total energy = 3102.4330 kcal/mol (3100.6969 without restraints) Performing minimization step: 3267. Total energy = 3101.0660 kcal/mol (3099.3298 without restraints) Performing minimization step: 3268. Total energy = 3099.6997 kcal/mol (3097.9633 without restraints) Performing minimization step: 3269. Total energy = 3098.3339 kcal/mol (3096.5974 without restraints) Performing minimization step: 3270. Total energy = 3096.9688 kcal/mol (3095.2321 without restraints) Performing minimization step: 3271. Total energy = 3095.6042 kcal/mol (3093.8674 without restraints) Performing minimization step: 3272. Total energy = 3094.2402 kcal/mol (3092.5033 without restraints) Performing minimization step: 3273. Total energy = 3092.8768 kcal/mol (3091.1397 without restraints) Performing minimization step: 3274. Total energy = 3091.5140 kcal/mol (3089.7768 without restraints) Performing minimization step: 3275. Total energy = 3090.1522 kcal/mol (3088.4148 without restraints) Performing minimization step: 3276. Total energy = 3088.7905 kcal/mol (3087.0530 without restraints) Performing minimization step: 3277. Total energy = 3087.4297 kcal/mol (3085.6922 without restraints) Performing minimization step: 3278. Total energy = 3086.0694 kcal/mol (3084.3315 without restraints) Performing minimization step: 3279. Total energy = 3084.7095 kcal/mol (3082.9715 without restraints) Performing minimization step: 3280. Total energy = 3083.3501 kcal/mol (3081.6120 without restraints) Performing minimization step: 3281. Total energy = 3081.9914 kcal/mol (3080.2531 without restraints) Performing minimization step: 3282. Total energy = 3080.6333 kcal/mol (3078.8949 without restraints) Performing minimization step: 3283. Total energy = 3079.2759 kcal/mol (3077.5374 without restraints) Performing minimization step: 3284. Total energy = 3077.9189 kcal/mol (3076.1802 without restraints) Performing minimization step: 3285. Total energy = 3076.5625 kcal/mol (3074.8236 without restraints) Performing minimization step: 3286. Total energy = 3075.2066 kcal/mol (3073.4676 without restraints) Performing minimization step: 3287. Total energy = 3073.8513 kcal/mol (3072.1122 without restraints) Performing minimization step: 3288. Total energy = 3072.4966 kcal/mol (3070.7573 without restraints) Performing minimization step: 3289. Total energy = 3071.1425 kcal/mol (3069.4030 without restraints) Performing minimization step: 3290. Total energy = 3069.7887 kcal/mol (3068.0491 without restraints) Performing minimization step: 3291. Total energy = 3068.4356 kcal/mol (3066.6959 without restraints) Performing minimization step: 3292. Total energy = 3067.0832 kcal/mol (3065.3433 without restraints) Performing minimization step: 3293. Total energy = 3065.7313 kcal/mol (3063.9913 without restraints) Performing minimization step: 3294. Total energy = 3064.3800 kcal/mol (3062.6399 without restraints) Performing minimization step: 3295. Total energy = 3063.0293 kcal/mol (3061.2890 without restraints) Performing minimization step: 3296. Total energy = 3061.6791 kcal/mol (3059.9387 without restraints) Performing minimization step: 3297. Total energy = 3060.3295 kcal/mol (3058.5889 without restraints) Performing minimization step: 3298. Total energy = 3058.9804 kcal/mol (3057.2397 without restraints) Performing minimization step: 3299. Total energy = 3057.6319 kcal/mol (3055.8910 without restraints) Performing minimization step: 3300. Total energy = 3056.2839 kcal/mol (3054.5429 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 3301. Total energy = 3054.9365 kcal/mol (3053.1953 without restraints) Performing minimization step: 3302. Total energy = 3053.5896 kcal/mol (3051.8483 without restraints) Performing minimization step: 3303. Total energy = 3052.2435 kcal/mol (3050.5021 without restraints) Performing minimization step: 3304. Total energy = 3050.8978 kcal/mol (3049.1562 without restraints) Performing minimization step: 3305. Total energy = 3049.5526 kcal/mol (3047.8108 without restraints) Performing minimization step: 3306. Total energy = 3048.2081 kcal/mol (3046.4662 without restraints) Performing minimization step: 3307. Total energy = 3046.8640 kcal/mol (3045.1220 without restraints) Performing minimization step: 3308. Total energy = 3045.5205 kcal/mol (3043.7783 without restraints) Performing minimization step: 3309. Total energy = 3044.1775 kcal/mol (3042.4351 without restraints) Performing minimization step: 3310. Total energy = 3042.8350 kcal/mol (3041.0925 without restraints) Performing minimization step: 3311. Total energy = 3041.4931 kcal/mol (3039.7504 without restraints) Performing minimization step: 3312. Total energy = 3040.1517 kcal/mol (3038.4089 without restraints) Performing minimization step: 3313. Total energy = 3038.8108 kcal/mol (3037.0679 without restraints) Performing minimization step: 3314. Total energy = 3037.4705 kcal/mol (3035.7274 without restraints) Performing minimization step: 3315. Total energy = 3036.1307 kcal/mol (3034.3875 without restraints) Performing minimization step: 3316. Total energy = 3034.7915 kcal/mol (3033.0481 without restraints) Performing minimization step: 3317. Total energy = 3033.4528 kcal/mol (3031.7093 without restraints) Performing minimization step: 3318. Total energy = 3032.1147 kcal/mol (3030.3710 without restraints) Performing minimization step: 3319. Total energy = 3030.7770 kcal/mol (3029.0333 without restraints) Performing minimization step: 3320. Total energy = 3029.4400 kcal/mol (3027.6960 without restraints) Performing minimization step: 3321. Total energy = 3028.1034 kcal/mol (3026.3594 without restraints) Performing minimization step: 3322. Total energy = 3026.7674 kcal/mol (3025.0232 without restraints) Performing minimization step: 3323. Total energy = 3025.4318 kcal/mol (3023.6875 without restraints) Performing minimization step: 3324. Total energy = 3024.0969 kcal/mol (3022.3524 without restraints) Performing minimization step: 3325. Total energy = 3022.7624 kcal/mol (3021.0178 without restraints) Performing minimization step: 3326. Total energy = 3021.4286 kcal/mol (3019.6838 without restraints) Performing minimization step: 3327. Total energy = 3020.0952 kcal/mol (3018.3503 without restraints) Performing minimization step: 3328. Total energy = 3018.7623 kcal/mol (3017.0173 without restraints) Performing minimization step: 3329. Total energy = 3017.4300 kcal/mol (3015.6848 without restraints) Performing minimization step: 3330. Total energy = 3016.0982 kcal/mol (3014.3529 without restraints) Performing minimization step: 3331. Total energy = 3014.7669 kcal/mol (3013.0214 without restraints) Performing minimization step: 3332. Total energy = 3013.4361 kcal/mol (3011.6905 without restraints) Performing minimization step: 3333. Total energy = 3012.1059 kcal/mol (3010.3601 without restraints) Performing minimization step: 3334. Total energy = 3010.7762 kcal/mol (3009.0303 without restraints) Performing minimization step: 3335. Total energy = 3009.4472 kcal/mol (3007.7012 without restraints) Performing minimization step: 3336. Total energy = 3008.1188 kcal/mol (3006.3726 without restraints) Performing minimization step: 3337. Total energy = 3006.7906 kcal/mol (3005.0443 without restraints) Performing minimization step: 3338. Total energy = 3005.4631 kcal/mol (3003.7167 without restraints) Performing minimization step: 3339. Total energy = 3004.1358 kcal/mol (3002.3892 without restraints) Performing minimization step: 3340. Total energy = 3002.8090 kcal/mol (3001.0622 without restraints) Performing minimization step: 3341. Total energy = 3001.4829 kcal/mol (2999.7360 without restraints) Performing minimization step: 3342. Total energy = 3000.1573 kcal/mol (2998.4102 without restraints) Performing minimization step: 3343. Total energy = 2998.8322 kcal/mol (2997.0850 without restraints) Performing minimization step: 3344. Total energy = 2997.5076 kcal/mol (2995.7603 without restraints) Performing minimization step: 3345. Total energy = 2996.1836 kcal/mol (2994.4361 without restraints) Performing minimization step: 3346. Total energy = 2994.8600 kcal/mol (2993.1124 without restraints) Performing minimization step: 3347. Total energy = 2993.5369 kcal/mol (2991.7892 without restraints) Performing minimization step: 3348. Total energy = 2992.2144 kcal/mol (2990.4665 without restraints) Performing minimization step: 3349. Total energy = 2990.8923 kcal/mol (2989.1443 without restraints) Performing minimization step: 3350. Total energy = 2989.5708 kcal/mol (2987.8226 without restraints) Performing minimization step: 3351. Total energy = 2988.2497 kcal/mol (2986.5014 without restraints) Performing minimization step: 3352. Total energy = 2986.9292 kcal/mol (2985.1807 without restraints) Performing minimization step: 3353. Total energy = 2985.6091 kcal/mol (2983.8605 without restraints) Performing minimization step: 3354. Total energy = 2984.2896 kcal/mol (2982.5409 without restraints) Performing minimization step: 3355. Total energy = 2982.9705 kcal/mol (2981.2217 without restraints) Performing minimization step: 3356. Total energy = 2981.6520 kcal/mol (2979.9030 without restraints) Performing minimization step: 3357. Total energy = 2980.3339 kcal/mol (2978.5848 without restraints) Performing minimization step: 3358. Total energy = 2979.0164 kcal/mol (2977.2671 without restraints) Performing minimization step: 3359. Total energy = 2977.6993 kcal/mol (2975.9499 without restraints) Performing minimization step: 3360. Total energy = 2976.3827 kcal/mol (2974.6332 without restraints) Performing minimization step: 3361. Total energy = 2975.0668 kcal/mol (2973.3171 without restraints) Performing minimization step: 3362. Total energy = 2973.7513 kcal/mol (2972.0014 without restraints) Performing minimization step: 3363. Total energy = 2972.4362 kcal/mol (2970.6862 without restraints) Performing minimization step: 3364. Total energy = 2971.1216 kcal/mol (2969.3714 without restraints) Performing minimization step: 3365. Total energy = 2969.8072 kcal/mol (2968.0569 without restraints) Performing minimization step: 3366. Total energy = 2968.4936 kcal/mol (2966.7432 without restraints) Performing minimization step: 3367. Total energy = 2967.1804 kcal/mol (2965.4299 without restraints) Performing minimization step: 3368. Total energy = 2965.8677 kcal/mol (2964.1171 without restraints) Performing minimization step: 3369. Total energy = 2964.5556 kcal/mol (2962.8047 without restraints) Performing minimization step: 3370. Total energy = 2963.2439 kcal/mol (2961.4929 without restraints) Performing minimization step: 3371. Total energy = 2961.9327 kcal/mol (2960.1816 without restraints) Performing minimization step: 3372. Total energy = 2960.6221 kcal/mol (2958.8709 without restraints) Performing minimization step: 3373. Total energy = 2959.3119 kcal/mol (2957.5605 without restraints) Performing minimization step: 3374. Total energy = 2958.0021 kcal/mol (2956.2506 without restraints) Performing minimization step: 3375. Total energy = 2956.6928 kcal/mol (2954.9412 without restraints) Performing minimization step: 3376. Total energy = 2955.3840 kcal/mol (2953.6322 without restraints) Performing minimization step: 3377. Total energy = 2954.0757 kcal/mol (2952.3237 without restraints) Performing minimization step: 3378. Total energy = 2952.7678 kcal/mol (2951.0158 without restraints) Performing minimization step: 3379. Total energy = 2951.4604 kcal/mol (2949.7082 without restraints) Performing minimization step: 3380. Total energy = 2950.1535 kcal/mol (2948.4012 without restraints) Performing minimization step: 3381. Total energy = 2948.8473 kcal/mol (2947.0948 without restraints) Performing minimization step: 3382. Total energy = 2947.5416 kcal/mol (2945.7889 without restraints) Performing minimization step: 3383. Total energy = 2946.2361 kcal/mol (2944.4833 without restraints) Performing minimization step: 3384. Total energy = 2944.9310 kcal/mol (2943.1782 without restraints) Performing minimization step: 3385. Total energy = 2943.6265 kcal/mol (2941.8735 without restraints) Performing minimization step: 3386. Total energy = 2942.3224 kcal/mol (2940.5692 without restraints) Performing minimization step: 3387. Total energy = 2941.0189 kcal/mol (2939.2657 without restraints) Performing minimization step: 3388. Total energy = 2939.7158 kcal/mol (2937.9624 without restraints) Performing minimization step: 3389. Total energy = 2938.4131 kcal/mol (2936.6596 without restraints) Performing minimization step: 3390. Total energy = 2937.1109 kcal/mol (2935.3572 without restraints) Performing minimization step: 3391. Total energy = 2935.8092 kcal/mol (2934.0553 without restraints) Performing minimization step: 3392. Total energy = 2934.5079 kcal/mol (2932.7539 without restraints) Performing minimization step: 3393. Total energy = 2933.2073 kcal/mol (2931.4531 without restraints) Performing minimization step: 3394. Total energy = 2931.9069 kcal/mol (2930.1526 without restraints) Performing minimization step: 3395. Total energy = 2930.6070 kcal/mol (2928.8526 without restraints) Performing minimization step: 3396. Total energy = 2929.3075 kcal/mol (2927.5530 without restraints) Performing minimization step: 3397. Total energy = 2928.0086 kcal/mol (2926.2539 without restraints) Performing minimization step: 3398. Total energy = 2926.7101 kcal/mol (2924.9553 without restraints) Performing minimization step: 3399. Total energy = 2925.4120 kcal/mol (2923.6571 without restraints) Performing minimization step: 3400. Total energy = 2924.1144 kcal/mol (2922.3593 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 3401. Total energy = 2922.8172 kcal/mol (2921.0620 without restraints) Performing minimization step: 3402. Total energy = 2921.5205 kcal/mol (2919.7652 without restraints) Performing minimization step: 3403. Total energy = 2920.2242 kcal/mol (2918.4688 without restraints) Performing minimization step: 3404. Total energy = 2918.9285 kcal/mol (2917.1729 without restraints) Performing minimization step: 3405. Total energy = 2917.6334 kcal/mol (2915.8776 without restraints) Performing minimization step: 3406. Total energy = 2916.3385 kcal/mol (2914.5826 without restraints) Performing minimization step: 3407. Total energy = 2915.0440 kcal/mol (2913.2880 without restraints) Performing minimization step: 3408. Total energy = 2913.7501 kcal/mol (2911.9939 without restraints) Performing minimization step: 3409. Total energy = 2912.4565 kcal/mol (2910.7003 without restraints) Performing minimization step: 3410. Total energy = 2911.1633 kcal/mol (2909.4069 without restraints) Performing minimization step: 3411. Total energy = 2909.8706 kcal/mol (2908.1141 without restraints) Performing minimization step: 3412. Total energy = 2908.5784 kcal/mol (2906.8217 without restraints) Performing minimization step: 3413. Total energy = 2907.2866 kcal/mol (2905.5298 without restraints) Performing minimization step: 3414. Total energy = 2905.9953 kcal/mol (2904.2384 without restraints) Performing minimization step: 3415. Total energy = 2904.7045 kcal/mol (2902.9474 without restraints) Performing minimization step: 3416. Total energy = 2903.4142 kcal/mol (2901.6571 without restraints) Performing minimization step: 3417. Total energy = 2902.1243 kcal/mol (2900.3670 without restraints) Performing minimization step: 3418. Total energy = 2900.8348 kcal/mol (2899.0773 without restraints) Performing minimization step: 3419. Total energy = 2899.5457 kcal/mol (2897.7881 without restraints) Performing minimization step: 3420. Total energy = 2898.2570 kcal/mol (2896.4993 without restraints) Performing minimization step: 3421. Total energy = 2896.9688 kcal/mol (2895.2110 without restraints) Performing minimization step: 3422. Total energy = 2895.6810 kcal/mol (2893.9230 without restraints) Performing minimization step: 3423. Total energy = 2894.3937 kcal/mol (2892.6356 without restraints) Performing minimization step: 3424. Total energy = 2893.1068 kcal/mol (2891.3485 without restraints) Performing minimization step: 3425. Total energy = 2891.8203 kcal/mol (2890.0619 without restraints) Performing minimization step: 3426. Total energy = 2890.5342 kcal/mol (2888.7757 without restraints) Performing minimization step: 3427. Total energy = 2889.2488 kcal/mol (2887.4902 without restraints) Performing minimization step: 3428. Total energy = 2887.9641 kcal/mol (2886.2053 without restraints) Performing minimization step: 3429. Total energy = 2886.6793 kcal/mol (2884.9205 without restraints) Performing minimization step: 3430. Total energy = 2885.3950 kcal/mol (2883.6360 without restraints) Performing minimization step: 3431. Total energy = 2884.1112 kcal/mol (2882.3520 without restraints) Performing minimization step: 3432. Total energy = 2882.8277 kcal/mol (2881.0685 without restraints) Performing minimization step: 3433. Total energy = 2881.5447 kcal/mol (2879.7853 without restraints) Performing minimization step: 3434. Total energy = 2880.2622 kcal/mol (2878.5026 without restraints) Performing minimization step: 3435. Total energy = 2878.9800 kcal/mol (2877.2204 without restraints) Performing minimization step: 3436. Total energy = 2877.6983 kcal/mol (2875.9385 without restraints) Performing minimization step: 3437. Total energy = 2876.4170 kcal/mol (2874.6571 without restraints) Performing minimization step: 3438. Total energy = 2875.1361 kcal/mol (2873.3761 without restraints) Performing minimization step: 3439. Total energy = 2873.8557 kcal/mol (2872.0955 without restraints) Performing minimization step: 3440. Total energy = 2872.5757 kcal/mol (2870.8154 without restraints) Performing minimization step: 3441. Total energy = 2871.2961 kcal/mol (2869.5356 without restraints) Performing minimization step: 3442. Total energy = 2870.0169 kcal/mol (2868.2563 without restraints) Performing minimization step: 3443. Total energy = 2868.7382 kcal/mol (2866.9775 without restraints) Performing minimization step: 3444. Total energy = 2867.4598 kcal/mol (2865.6990 without restraints) Performing minimization step: 3445. Total energy = 2866.1819 kcal/mol (2864.4210 without restraints) Performing minimization step: 3446. Total energy = 2864.9044 kcal/mol (2863.1434 without restraints) Performing minimization step: 3447. Total energy = 2863.6276 kcal/mol (2861.8664 without restraints) Performing minimization step: 3448. Total energy = 2862.3510 kcal/mol (2860.5896 without restraints) Performing minimization step: 3449. Total energy = 2861.0747 kcal/mol (2859.3133 without restraints) Performing minimization step: 3450. Total energy = 2859.7989 kcal/mol (2858.0373 without restraints) Performing minimization step: 3451. Total energy = 2858.5235 kcal/mol (2856.7618 without restraints) Performing minimization step: 3452. Total energy = 2857.2484 kcal/mol (2855.4865 without restraints) Performing minimization step: 3453. Total energy = 2855.9738 kcal/mol (2854.2118 without restraints) Performing minimization step: 3454. Total energy = 2854.6996 kcal/mol (2852.9375 without restraints) Performing minimization step: 3455. Total energy = 2853.4259 kcal/mol (2851.6637 without restraints) Performing minimization step: 3456. Total energy = 2852.1526 kcal/mol (2850.3903 without restraints) Performing minimization step: 3457. Total energy = 2850.8797 kcal/mol (2849.1172 without restraints) Performing minimization step: 3458. Total energy = 2849.6072 kcal/mol (2847.8446 without restraints) Performing minimization step: 3459. Total energy = 2848.3351 kcal/mol (2846.5724 without restraints) Performing minimization step: 3460. Total energy = 2847.0636 kcal/mol (2845.3008 without restraints) Performing minimization step: 3461. Total energy = 2845.7924 kcal/mol (2844.0294 without restraints) Performing minimization step: 3462. Total energy = 2844.5216 kcal/mol (2842.7586 without restraints) Performing minimization step: 3463. Total energy = 2843.2513 kcal/mol (2841.4881 without restraints) Performing minimization step: 3464. Total energy = 2841.9812 kcal/mol (2840.2179 without restraints) Performing minimization step: 3465. Total energy = 2840.7116 kcal/mol (2838.9481 without restraints) Performing minimization step: 3466. Total energy = 2839.4424 kcal/mol (2837.6788 without restraints) Performing minimization step: 3467. Total energy = 2838.1735 kcal/mol (2836.4098 without restraints) Performing minimization step: 3468. Total energy = 2836.9051 kcal/mol (2835.1413 without restraints) Performing minimization step: 3469. Total energy = 2835.6371 kcal/mol (2833.8731 without restraints) Performing minimization step: 3470. Total energy = 2834.3695 kcal/mol (2832.6054 without restraints) Performing minimization step: 3471. Total energy = 2833.1023 kcal/mol (2831.3380 without restraints) Performing minimization step: 3472. Total energy = 2831.8354 kcal/mol (2830.0711 without restraints) Performing minimization step: 3473. Total energy = 2830.5691 kcal/mol (2828.8046 without restraints) Performing minimization step: 3474. Total energy = 2829.3031 kcal/mol (2827.5385 without restraints) Performing minimization step: 3475. Total energy = 2828.0375 kcal/mol (2826.2727 without restraints) Performing minimization step: 3476. Total energy = 2826.7723 kcal/mol (2825.0074 without restraints) Performing minimization step: 3477. Total energy = 2825.5074 kcal/mol (2823.7425 without restraints) Performing minimization step: 3478. Total energy = 2824.2430 kcal/mol (2822.4779 without restraints) Performing minimization step: 3479. Total energy = 2822.9790 kcal/mol (2821.2138 without restraints) Performing minimization step: 3480. Total energy = 2821.7153 kcal/mol (2819.9500 without restraints) Performing minimization step: 3481. Total energy = 2820.4523 kcal/mol (2818.6868 without restraints) Performing minimization step: 3482. Total energy = 2819.1895 kcal/mol (2817.4239 without restraints) Performing minimization step: 3483. Total energy = 2817.9270 kcal/mol (2816.1613 without restraints) Performing minimization step: 3484. Total energy = 2816.6650 kcal/mol (2814.8992 without restraints) Performing minimization step: 3485. Total energy = 2815.4033 kcal/mol (2813.6374 without restraints) Performing minimization step: 3486. Total energy = 2814.1421 kcal/mol (2812.3760 without restraints) Performing minimization step: 3487. Total energy = 2812.8812 kcal/mol (2811.1151 without restraints) Performing minimization step: 3488. Total energy = 2811.6208 kcal/mol (2809.8545 without restraints) Performing minimization step: 3489. Total energy = 2810.3607 kcal/mol (2808.5943 without restraints) Performing minimization step: 3490. Total energy = 2809.1010 kcal/mol (2807.3345 without restraints) Performing minimization step: 3491. Total energy = 2807.8419 kcal/mol (2806.0753 without restraints) Performing minimization step: 3492. Total energy = 2806.5830 kcal/mol (2804.8163 without restraints) Performing minimization step: 3493. Total energy = 2805.3245 kcal/mol (2803.5576 without restraints) Performing minimization step: 3494. Total energy = 2804.0665 kcal/mol (2802.2996 without restraints) Performing minimization step: 3495. Total energy = 2802.8089 kcal/mol (2801.0417 without restraints) Performing minimization step: 3496. Total energy = 2801.5515 kcal/mol (2799.7843 without restraints) Performing minimization step: 3497. Total energy = 2800.2946 kcal/mol (2798.5272 without restraints) Performing minimization step: 3498. Total energy = 2799.0380 kcal/mol (2797.2705 without restraints) Performing minimization step: 3499. Total energy = 2797.7818 kcal/mol (2796.0141 without restraints) Performing minimization step: 3500. Total energy = 2796.5259 kcal/mol (2794.7582 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 3501. Total energy = 2795.2705 kcal/mol (2793.5027 without restraints) Performing minimization step: 3502. Total energy = 2794.0155 kcal/mol (2792.2475 without restraints) Performing minimization step: 3503. Total energy = 2792.7609 kcal/mol (2790.9928 without restraints) Performing minimization step: 3504. Total energy = 2791.5066 kcal/mol (2789.7384 without restraints) Performing minimization step: 3505. Total energy = 2790.2528 kcal/mol (2788.4846 without restraints) Performing minimization step: 3506. Total energy = 2788.9995 kcal/mol (2787.2310 without restraints) Performing minimization step: 3507. Total energy = 2787.7464 kcal/mol (2785.9778 without restraints) Performing minimization step: 3508. Total energy = 2786.4936 kcal/mol (2784.7249 without restraints) Performing minimization step: 3509. Total energy = 2785.2413 kcal/mol (2783.4725 without restraints) Performing minimization step: 3510. Total energy = 2783.9893 kcal/mol (2782.2204 without restraints) Performing minimization step: 3511. Total energy = 2782.7377 kcal/mol (2780.9687 without restraints) Performing minimization step: 3512. Total energy = 2781.4865 kcal/mol (2779.7173 without restraints) Performing minimization step: 3513. Total energy = 2780.2356 kcal/mol (2778.4663 without restraints) Performing minimization step: 3514. Total energy = 2778.9851 kcal/mol (2777.2157 without restraints) Performing minimization step: 3515. Total energy = 2777.7350 kcal/mol (2775.9655 without restraints) Performing minimization step: 3516. Total energy = 2776.4855 kcal/mol (2774.7159 without restraints) Performing minimization step: 3517. Total energy = 2775.2361 kcal/mol (2773.4664 without restraints) Performing minimization step: 3518. Total energy = 2773.9871 kcal/mol (2772.2173 without restraints) Performing minimization step: 3519. Total energy = 2772.7385 kcal/mol (2770.9686 without restraints) Performing minimization step: 3520. Total energy = 2771.4903 kcal/mol (2769.7202 without restraints) Performing minimization step: 3521. Total energy = 2770.2425 kcal/mol (2768.4723 without restraints) Performing minimization step: 3522. Total energy = 2768.9950 kcal/mol (2767.2247 without restraints) Performing minimization step: 3523. Total energy = 2767.7479 kcal/mol (2765.9774 without restraints) Performing minimization step: 3524. Total energy = 2766.5011 kcal/mol (2764.7306 without restraints) Performing minimization step: 3525. Total energy = 2765.2547 kcal/mol (2763.4841 without restraints) Performing minimization step: 3526. Total energy = 2764.0088 kcal/mol (2762.2380 without restraints) Performing minimization step: 3527. Total energy = 2762.7631 kcal/mol (2760.9923 without restraints) Performing minimization step: 3528. Total energy = 2761.5179 kcal/mol (2759.7469 without restraints) Performing minimization step: 3529. Total energy = 2760.2732 kcal/mol (2758.5021 without restraints) Performing minimization step: 3530. Total energy = 2759.0287 kcal/mol (2757.2575 without restraints) Performing minimization step: 3531. Total energy = 2757.7845 kcal/mol (2756.0132 without restraints) Performing minimization step: 3532. Total energy = 2756.5408 kcal/mol (2754.7693 without restraints) Performing minimization step: 3533. Total energy = 2755.2974 kcal/mol (2753.5258 without restraints) Performing minimization step: 3534. Total energy = 2754.0545 kcal/mol (2752.2829 without restraints) Performing minimization step: 3535. Total energy = 2752.8118 kcal/mol (2751.0401 without restraints) Performing minimization step: 3536. Total energy = 2751.5697 kcal/mol (2749.7979 without restraints) Performing minimization step: 3537. Total energy = 2750.3278 kcal/mol (2748.5558 without restraints) Performing minimization step: 3538. Total energy = 2749.0862 kcal/mol (2747.3141 without restraints) Performing minimization step: 3539. Total energy = 2747.8450 kcal/mol (2746.0727 without restraints) Performing minimization step: 3540. Total energy = 2746.6041 kcal/mol (2744.8318 without restraints) Performing minimization step: 3541. Total energy = 2745.3636 kcal/mol (2743.5911 without restraints) Performing minimization step: 3542. Total energy = 2744.1235 kcal/mol (2742.3509 without restraints) Performing minimization step: 3543. Total energy = 2742.8837 kcal/mol (2741.1110 without restraints) Performing minimization step: 3544. Total energy = 2741.6444 kcal/mol (2739.8717 without restraints) Performing minimization step: 3545. Total energy = 2740.4056 kcal/mol (2738.6327 without restraints) Performing minimization step: 3546. Total energy = 2739.1669 kcal/mol (2737.3939 without restraints) Performing minimization step: 3547. Total energy = 2737.9286 kcal/mol (2736.1555 without restraints) Performing minimization step: 3548. Total energy = 2736.6906 kcal/mol (2734.9174 without restraints) Performing minimization step: 3549. Total energy = 2735.4530 kcal/mol (2733.6797 without restraints) Performing minimization step: 3550. Total energy = 2734.2157 kcal/mol (2732.4423 without restraints) Performing minimization step: 3551. Total energy = 2732.9788 kcal/mol (2731.2053 without restraints) Performing minimization step: 3552. Total energy = 2731.7423 kcal/mol (2729.9686 without restraints) Performing minimization step: 3553. Total energy = 2730.5061 kcal/mol (2728.7324 without restraints) Performing minimization step: 3554. Total energy = 2729.2703 kcal/mol (2727.4964 without restraints) Performing minimization step: 3555. Total energy = 2728.0348 kcal/mol (2726.2608 without restraints) Performing minimization step: 3556. Total energy = 2726.8002 kcal/mol (2725.0261 without restraints) Performing minimization step: 3557. Total energy = 2725.5654 kcal/mol (2723.7912 without restraints) Performing minimization step: 3558. Total energy = 2724.3310 kcal/mol (2722.5567 without restraints) Performing minimization step: 3559. Total energy = 2723.0969 kcal/mol (2721.3225 without restraints) Performing minimization step: 3560. Total energy = 2721.8632 kcal/mol (2720.0887 without restraints) Performing minimization step: 3561. Total energy = 2720.6301 kcal/mol (2718.8555 without restraints) Performing minimization step: 3562. Total energy = 2719.3971 kcal/mol (2717.6224 without restraints) Performing minimization step: 3563. Total energy = 2718.1645 kcal/mol (2716.3897 without restraints) Performing minimization step: 3564. Total energy = 2716.9322 kcal/mol (2715.1573 without restraints) Performing minimization step: 3565. Total energy = 2715.7003 kcal/mol (2713.9252 without restraints) Performing minimization step: 3566. Total energy = 2714.4689 kcal/mol (2712.6937 without restraints) Performing minimization step: 3567. Total energy = 2713.2377 kcal/mol (2711.4624 without restraints) Performing minimization step: 3568. Total energy = 2712.0068 kcal/mol (2710.2314 without restraints) Performing minimization step: 3569. Total energy = 2710.7763 kcal/mol (2709.0008 without restraints) Performing minimization step: 3570. Total energy = 2709.5461 kcal/mol (2707.7705 without restraints) Performing minimization step: 3571. Total energy = 2708.3163 kcal/mol (2706.5406 without restraints) Performing minimization step: 3572. Total energy = 2707.0868 kcal/mol (2705.3110 without restraints) Performing minimization step: 3573. Total energy = 2705.8576 kcal/mol (2704.0818 without restraints) Performing minimization step: 3574. Total energy = 2704.6289 kcal/mol (2702.8529 without restraints) Performing minimization step: 3575. Total energy = 2703.4004 kcal/mol (2701.6243 without restraints) Performing minimization step: 3576. Total energy = 2702.1723 kcal/mol (2700.3961 without restraints) Performing minimization step: 3577. Total energy = 2700.9446 kcal/mol (2699.1683 without restraints) Performing minimization step: 3578. Total energy = 2699.7172 kcal/mol (2697.9408 without restraints) Performing minimization step: 3579. Total energy = 2698.4904 kcal/mol (2696.7139 without restraints) Performing minimization step: 3580. Total energy = 2697.2637 kcal/mol (2695.4871 without restraints) Performing minimization step: 3581. Total energy = 2696.0374 kcal/mol (2694.2606 without restraints) Performing minimization step: 3582. Total energy = 2694.8116 kcal/mol (2693.0347 without restraints) Performing minimization step: 3583. Total energy = 2693.5859 kcal/mol (2691.8090 without restraints) Performing minimization step: 3584. Total energy = 2692.3606 kcal/mol (2690.5835 without restraints) Performing minimization step: 3585. Total energy = 2691.1356 kcal/mol (2689.3585 without restraints) Performing minimization step: 3586. Total energy = 2689.9110 kcal/mol (2688.1337 without restraints) Performing minimization step: 3587. Total energy = 2688.6867 kcal/mol (2686.9093 without restraints) Performing minimization step: 3588. Total energy = 2687.4627 kcal/mol (2685.6853 without restraints) Performing minimization step: 3589. Total energy = 2686.2391 kcal/mol (2684.4616 without restraints) Performing minimization step: 3590. Total energy = 2685.0159 kcal/mol (2683.2382 without restraints) Performing minimization step: 3591. Total energy = 2683.7930 kcal/mol (2682.0153 without restraints) Performing minimization step: 3592. Total energy = 2682.5704 kcal/mol (2680.7926 without restraints) Performing minimization step: 3593. Total energy = 2681.3484 kcal/mol (2679.5705 without restraints) Performing minimization step: 3594. Total energy = 2680.1265 kcal/mol (2678.3485 without restraints) Performing minimization step: 3595. Total energy = 2678.9050 kcal/mol (2677.1268 without restraints) Performing minimization step: 3596. Total energy = 2677.6838 kcal/mol (2675.9056 without restraints) Performing minimization step: 3597. Total energy = 2676.4629 kcal/mol (2674.6846 without restraints) Performing minimization step: 3598. Total energy = 2675.2424 kcal/mol (2673.4640 without restraints) Performing minimization step: 3599. Total energy = 2674.0222 kcal/mol (2672.2437 without restraints) Performing minimization step: 3600. Total energy = 2672.8023 kcal/mol (2671.0237 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 3601. Total energy = 2671.5829 kcal/mol (2669.8042 without restraints) Performing minimization step: 3602. Total energy = 2670.3637 kcal/mol (2668.5849 without restraints) Performing minimization step: 3603. Total energy = 2669.1451 kcal/mol (2667.3662 without restraints) Performing minimization step: 3604. Total energy = 2667.9266 kcal/mol (2666.1476 without restraints) Performing minimization step: 3605. Total energy = 2666.7085 kcal/mol (2664.9293 without restraints) Performing minimization step: 3606. Total energy = 2665.4909 kcal/mol (2663.7116 without restraints) Performing minimization step: 3607. Total energy = 2664.2734 kcal/mol (2662.4940 without restraints) Performing minimization step: 3608. Total energy = 2663.0562 kcal/mol (2661.2768 without restraints) Performing minimization step: 3609. Total energy = 2661.8394 kcal/mol (2660.0599 without restraints) Performing minimization step: 3610. Total energy = 2660.6229 kcal/mol (2658.8433 without restraints) Performing minimization step: 3611. Total energy = 2659.4068 kcal/mol (2657.6271 without restraints) Performing minimization step: 3612. Total energy = 2658.1910 kcal/mol (2656.4111 without restraints) Performing minimization step: 3613. Total energy = 2656.9757 kcal/mol (2655.1958 without restraints) Performing minimization step: 3614. Total energy = 2655.7605 kcal/mol (2653.9805 without restraints) Performing minimization step: 3615. Total energy = 2654.5458 kcal/mol (2652.7657 without restraints) Performing minimization step: 3616. Total energy = 2653.3313 kcal/mol (2651.5511 without restraints) Performing minimization step: 3617. Total energy = 2652.1171 kcal/mol (2650.3368 without restraints) Performing minimization step: 3618. Total energy = 2650.9031 kcal/mol (2649.1227 without restraints) Performing minimization step: 3619. Total energy = 2649.6897 kcal/mol (2647.9092 without restraints) Performing minimization step: 3620. Total energy = 2648.4765 kcal/mol (2646.6959 without restraints) Performing minimization step: 3621. Total energy = 2647.2637 kcal/mol (2645.4830 without restraints) Performing minimization step: 3622. Total energy = 2646.0512 kcal/mol (2644.2705 without restraints) Performing minimization step: 3623. Total energy = 2644.8391 kcal/mol (2643.0582 without restraints) Performing minimization step: 3624. Total energy = 2643.6272 kcal/mol (2641.8463 without restraints) Performing minimization step: 3625. Total energy = 2642.4158 kcal/mol (2640.6347 without restraints) Performing minimization step: 3626. Total energy = 2641.2048 kcal/mol (2639.4237 without restraints) Performing minimization step: 3627. Total energy = 2639.9940 kcal/mol (2638.2127 without restraints) Performing minimization step: 3628. Total energy = 2638.7835 kcal/mol (2637.0021 without restraints) Performing minimization step: 3629. Total energy = 2637.5733 kcal/mol (2635.7919 without restraints) Performing minimization step: 3630. Total energy = 2636.3634 kcal/mol (2634.5819 without restraints) Performing minimization step: 3631. Total energy = 2635.1539 kcal/mol (2633.3723 without restraints) Performing minimization step: 3632. Total energy = 2633.9447 kcal/mol (2632.1630 without restraints) Performing minimization step: 3633. Total energy = 2632.7359 kcal/mol (2630.9541 without restraints) Performing minimization step: 3634. Total energy = 2631.5274 kcal/mol (2629.7455 without restraints) Performing minimization step: 3635. Total energy = 2630.3192 kcal/mol (2628.5372 without restraints) Performing minimization step: 3636. Total energy = 2629.1113 kcal/mol (2627.3292 without restraints) Performing minimization step: 3637. Total energy = 2627.9038 kcal/mol (2626.1216 without restraints) Performing minimization step: 3638. Total energy = 2626.6963 kcal/mol (2624.9141 without restraints) Performing minimization step: 3639. Total energy = 2625.4894 kcal/mol (2623.7071 without restraints) Performing minimization step: 3640. Total energy = 2624.2828 kcal/mol (2622.5004 without restraints) Performing minimization step: 3641. Total energy = 2623.0766 kcal/mol (2621.2941 without restraints) Performing minimization step: 3642. Total energy = 2621.8709 kcal/mol (2620.0883 without restraints) Performing minimization step: 3643. Total energy = 2620.6653 kcal/mol (2618.8826 without restraints) Performing minimization step: 3644. Total energy = 2619.4601 kcal/mol (2617.6773 without restraints) Performing minimization step: 3645. Total energy = 2618.2551 kcal/mol (2616.4723 without restraints) Performing minimization step: 3646. Total energy = 2617.0505 kcal/mol (2615.2676 without restraints) Performing minimization step: 3647. Total energy = 2615.8462 kcal/mol (2614.0632 without restraints) Performing minimization step: 3648. Total energy = 2614.6423 kcal/mol (2612.8591 without restraints) Performing minimization step: 3649. Total energy = 2613.4386 kcal/mol (2611.6554 without restraints) Performing minimization step: 3650. Total energy = 2612.2353 kcal/mol (2610.4520 without restraints) Performing minimization step: 3651. Total energy = 2611.0323 kcal/mol (2609.2489 without restraints) Performing minimization step: 3652. Total energy = 2609.8297 kcal/mol (2608.0462 without restraints) Performing minimization step: 3653. Total energy = 2608.6273 kcal/mol (2606.8437 without restraints) Performing minimization step: 3654. Total energy = 2607.4253 kcal/mol (2605.6416 without restraints) Performing minimization step: 3655. Total energy = 2606.2236 kcal/mol (2604.4398 without restraints) Performing minimization step: 3656. Total energy = 2605.0222 kcal/mol (2603.2384 without restraints) Performing minimization step: 3657. Total energy = 2603.8212 kcal/mol (2602.0372 without restraints) Performing minimization step: 3658. Total energy = 2602.6204 kcal/mol (2600.8364 without restraints) Performing minimization step: 3659. Total energy = 2601.4200 kcal/mol (2599.6359 without restraints) Performing minimization step: 3660. Total energy = 2600.2200 kcal/mol (2598.4358 without restraints) Performing minimization step: 3661. Total energy = 2599.0202 kcal/mol (2597.2359 without restraints) Performing minimization step: 3662. Total energy = 2597.8208 kcal/mol (2596.0364 without restraints) Performing minimization step: 3663. Total energy = 2596.6217 kcal/mol (2594.8372 without restraints) Performing minimization step: 3664. Total energy = 2595.4229 kcal/mol (2593.6384 without restraints) Performing minimization step: 3665. Total energy = 2594.2244 kcal/mol (2592.4398 without restraints) Performing minimization step: 3666. Total energy = 2593.0263 kcal/mol (2591.2416 without restraints) Performing minimization step: 3667. Total energy = 2591.8284 kcal/mol (2590.0437 without restraints) Performing minimization step: 3668. Total energy = 2590.6309 kcal/mol (2588.8461 without restraints) Performing minimization step: 3669. Total energy = 2589.4338 kcal/mol (2587.6488 without restraints) Performing minimization step: 3670. Total energy = 2588.2369 kcal/mol (2586.4519 without restraints) Performing minimization step: 3671. Total energy = 2587.0403 kcal/mol (2585.2551 without restraints) Performing minimization step: 3672. Total energy = 2585.8439 kcal/mol (2584.0588 without restraints) Performing minimization step: 3673. Total energy = 2584.6480 kcal/mol (2582.8628 without restraints) Performing minimization step: 3674. Total energy = 2583.4524 kcal/mol (2581.6671 without restraints) Performing minimization step: 3675. Total energy = 2582.2572 kcal/mol (2580.4717 without restraints) Performing minimization step: 3676. Total energy = 2581.0622 kcal/mol (2579.2767 without restraints) Performing minimization step: 3677. Total energy = 2579.8676 kcal/mol (2578.0820 without restraints) Performing minimization step: 3678. Total energy = 2578.6732 kcal/mol (2576.8875 without restraints) Performing minimization step: 3679. Total energy = 2577.4792 kcal/mol (2575.6935 without restraints) Performing minimization step: 3680. Total energy = 2576.2855 kcal/mol (2574.4997 without restraints) Performing minimization step: 3681. Total energy = 2575.0922 kcal/mol (2573.3063 without restraints) Performing minimization step: 3682. Total energy = 2573.8991 kcal/mol (2572.1131 without restraints) Performing minimization step: 3683. Total energy = 2572.7064 kcal/mol (2570.9203 without restraints) Performing minimization step: 3684. Total energy = 2571.5140 kcal/mol (2569.7278 without restraints) Performing minimization step: 3685. Total energy = 2570.3219 kcal/mol (2568.5357 without restraints) Performing minimization step: 3686. Total energy = 2569.1301 kcal/mol (2567.3438 without restraints) Performing minimization step: 3687. Total energy = 2567.9387 kcal/mol (2566.1523 without restraints) Performing minimization step: 3688. Total energy = 2566.7475 kcal/mol (2564.9610 without restraints) Performing minimization step: 3689. Total energy = 2565.5567 kcal/mol (2563.7701 without restraints) Performing minimization step: 3690. Total energy = 2564.3662 kcal/mol (2562.5796 without restraints) Performing minimization step: 3691. Total energy = 2563.1762 kcal/mol (2561.3895 without restraints) Performing minimization step: 3692. Total energy = 2561.9864 kcal/mol (2560.1996 without restraints) Performing minimization step: 3693. Total energy = 2560.7969 kcal/mol (2559.0100 without restraints) Performing minimization step: 3694. Total energy = 2559.6078 kcal/mol (2557.8209 without restraints) Performing minimization step: 3695. Total energy = 2558.4189 kcal/mol (2556.6319 without restraints) Performing minimization step: 3696. Total energy = 2557.2305 kcal/mol (2555.4434 without restraints) Performing minimization step: 3697. Total energy = 2556.0423 kcal/mol (2554.2552 without restraints) Performing minimization step: 3698. Total energy = 2554.8545 kcal/mol (2553.0672 without restraints) Performing minimization step: 3699. Total energy = 2553.6668 kcal/mol (2551.8795 without restraints) Performing minimization step: 3700. Total energy = 2552.4795 kcal/mol (2550.6921 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 3701. Total energy = 2551.2924 kcal/mol (2549.5050 without restraints) Performing minimization step: 3702. Total energy = 2550.1057 kcal/mol (2548.3182 without restraints) Performing minimization step: 3703. Total energy = 2548.9193 kcal/mol (2547.1317 without restraints) Performing minimization step: 3704. Total energy = 2547.7332 kcal/mol (2545.9455 without restraints) Performing minimization step: 3705. Total energy = 2546.5475 kcal/mol (2544.7598 without restraints) Performing minimization step: 3706. Total energy = 2545.3622 kcal/mol (2543.5743 without restraints) Performing minimization step: 3707. Total energy = 2544.1771 kcal/mol (2542.3891 without restraints) Performing minimization step: 3708. Total energy = 2542.9924 kcal/mol (2541.2044 without restraints) Performing minimization step: 3709. Total energy = 2541.8079 kcal/mol (2540.0198 without restraints) Performing minimization step: 3710. Total energy = 2540.6237 kcal/mol (2538.8356 without restraints) Performing minimization step: 3711. Total energy = 2539.4400 kcal/mol (2537.6518 without restraints) Performing minimization step: 3712. Total energy = 2538.2565 kcal/mol (2536.4682 without restraints) Performing minimization step: 3713. Total energy = 2537.0732 kcal/mol (2535.2849 without restraints) Performing minimization step: 3714. Total energy = 2535.8903 kcal/mol (2534.1018 without restraints) Performing minimization step: 3715. Total energy = 2534.7076 kcal/mol (2532.9191 without restraints) Performing minimization step: 3716. Total energy = 2533.5253 kcal/mol (2531.7367 without restraints) Performing minimization step: 3717. Total energy = 2532.3433 kcal/mol (2530.5546 without restraints) Performing minimization step: 3718. Total energy = 2531.1616 kcal/mol (2529.3729 without restraints) Performing minimization step: 3719. Total energy = 2529.9804 kcal/mol (2528.1916 without restraints) Performing minimization step: 3720. Total energy = 2528.7994 kcal/mol (2527.0105 without restraints) Performing minimization step: 3721. Total energy = 2527.6186 kcal/mol (2525.8296 without restraints) Performing minimization step: 3722. Total energy = 2526.4382 kcal/mol (2524.6493 without restraints) Performing minimization step: 3723. Total energy = 2525.2582 kcal/mol (2523.4691 without restraints) Performing minimization step: 3724. Total energy = 2524.0785 kcal/mol (2522.2893 without restraints) Performing minimization step: 3725. Total energy = 2522.8990 kcal/mol (2521.1097 without restraints) Performing minimization step: 3726. Total energy = 2521.7198 kcal/mol (2519.9305 without restraints) Performing minimization step: 3727. Total energy = 2520.5410 kcal/mol (2518.7517 without restraints) Performing minimization step: 3728. Total energy = 2519.3625 kcal/mol (2517.5731 without restraints) Performing minimization step: 3729. Total energy = 2518.1843 kcal/mol (2516.3948 without restraints) Performing minimization step: 3730. Total energy = 2517.0063 kcal/mol (2515.2167 without restraints) Performing minimization step: 3731. Total energy = 2515.8287 kcal/mol (2514.0390 without restraints) Performing minimization step: 3732. Total energy = 2514.6516 kcal/mol (2512.8619 without restraints) Performing minimization step: 3733. Total energy = 2513.4746 kcal/mol (2511.6848 without restraints) Performing minimization step: 3734. Total energy = 2512.2979 kcal/mol (2510.5081 without restraints) Performing minimization step: 3735. Total energy = 2511.1218 kcal/mol (2509.3319 without restraints) Performing minimization step: 3736. Total energy = 2509.9459 kcal/mol (2508.1561 without restraints) Performing minimization step: 3737. Total energy = 2508.7704 kcal/mol (2506.9805 without restraints) Performing minimization step: 3738. Total energy = 2507.5953 kcal/mol (2505.8052 without restraints) Performing minimization step: 3739. Total energy = 2506.4202 kcal/mol (2504.6300 without restraints) Performing minimization step: 3740. Total energy = 2505.2456 kcal/mol (2503.4555 without restraints) Performing minimization step: 3741. Total energy = 2504.0712 kcal/mol (2502.2809 without restraints) Performing minimization step: 3742. Total energy = 2502.8970 kcal/mol (2501.1066 without restraints) Performing minimization step: 3743. Total energy = 2501.7231 kcal/mol (2499.9327 without restraints) Performing minimization step: 3744. Total energy = 2500.5495 kcal/mol (2498.7590 without restraints) Performing minimization step: 3745. Total energy = 2499.3767 kcal/mol (2497.5861 without restraints) Performing minimization step: 3746. Total energy = 2498.2038 kcal/mol (2496.4131 without restraints) Performing minimization step: 3747. Total energy = 2497.0311 kcal/mol (2495.2404 without restraints) Performing minimization step: 3748. Total energy = 2495.8588 kcal/mol (2494.0680 without restraints) Performing minimization step: 3749. Total energy = 2494.6868 kcal/mol (2492.8959 without restraints) Performing minimization step: 3750. Total energy = 2493.5151 kcal/mol (2491.7242 without restraints) Performing minimization step: 3751. Total energy = 2492.3437 kcal/mol (2490.5528 without restraints) Performing minimization step: 3752. Total energy = 2491.1726 kcal/mol (2489.3816 without restraints) Performing minimization step: 3753. Total energy = 2490.0018 kcal/mol (2488.2107 without restraints) Performing minimization step: 3754. Total energy = 2488.8314 kcal/mol (2487.0402 without restraints) Performing minimization step: 3755. Total energy = 2487.6612 kcal/mol (2485.8700 without restraints) Performing minimization step: 3756. Total energy = 2486.4913 kcal/mol (2484.7001 without restraints) Performing minimization step: 3757. Total energy = 2485.3218 kcal/mol (2483.5304 without restraints) Performing minimization step: 3758. Total energy = 2484.1526 kcal/mol (2482.3613 without restraints) Performing minimization step: 3759. Total energy = 2482.9838 kcal/mol (2481.1923 without restraints) Performing minimization step: 3760. Total energy = 2481.8152 kcal/mol (2480.0237 without restraints) Performing minimization step: 3761. Total energy = 2480.6469 kcal/mol (2478.8553 without restraints) Performing minimization step: 3762. Total energy = 2479.4789 kcal/mol (2477.6872 without restraints) Performing minimization step: 3763. Total energy = 2478.3112 kcal/mol (2476.5195 without restraints) Performing minimization step: 3764. Total energy = 2477.1440 kcal/mol (2475.3523 without restraints) Performing minimization step: 3765. Total energy = 2475.9770 kcal/mol (2474.1851 without restraints) Performing minimization step: 3766. Total energy = 2474.8102 kcal/mol (2473.0183 without restraints) Performing minimization step: 3767. Total energy = 2473.6438 kcal/mol (2471.8518 without restraints) Performing minimization step: 3768. Total energy = 2472.4777 kcal/mol (2470.6856 without restraints) Performing minimization step: 3769. Total energy = 2471.3118 kcal/mol (2469.5198 without restraints) Performing minimization step: 3770. Total energy = 2470.1463 kcal/mol (2468.3542 without restraints) Performing minimization step: 3771. Total energy = 2468.9811 kcal/mol (2467.1889 without restraints) Performing minimization step: 3772. Total energy = 2467.8162 kcal/mol (2466.0240 without restraints) Performing minimization step: 3773. Total energy = 2466.6516 kcal/mol (2464.8593 without restraints) Performing minimization step: 3774. Total energy = 2465.4875 kcal/mol (2463.6952 without restraints) Performing minimization step: 3775. Total energy = 2464.3236 kcal/mol (2462.5312 without restraints) Performing minimization step: 3776. Total energy = 2463.1599 kcal/mol (2461.3674 without restraints) Performing minimization step: 3777. Total energy = 2461.9966 kcal/mol (2460.2040 without restraints) Performing minimization step: 3778. Total energy = 2460.8335 kcal/mol (2459.0410 without restraints) Performing minimization step: 3779. Total energy = 2459.6708 kcal/mol (2457.8782 without restraints) Performing minimization step: 3780. Total energy = 2458.5082 kcal/mol (2456.7155 without restraints) Performing minimization step: 3781. Total energy = 2457.3462 kcal/mol (2455.5534 without restraints) Performing minimization step: 3782. Total energy = 2456.1844 kcal/mol (2454.3916 without restraints) Performing minimization step: 3783. Total energy = 2455.0229 kcal/mol (2453.2300 without restraints) Performing minimization step: 3784. Total energy = 2453.8619 kcal/mol (2452.0690 without restraints) Performing minimization step: 3785. Total energy = 2452.7011 kcal/mol (2450.9081 without restraints) Performing minimization step: 3786. Total energy = 2451.5408 kcal/mol (2449.7478 without restraints) Performing minimization step: 3787. Total energy = 2450.3805 kcal/mol (2448.5875 without restraints) Performing minimization step: 3788. Total energy = 2449.2206 kcal/mol (2447.4275 without restraints) Performing minimization step: 3789. Total energy = 2448.0610 kcal/mol (2446.2678 without restraints) Performing minimization step: 3790. Total energy = 2446.9017 kcal/mol (2445.1084 without restraints) Performing minimization step: 3791. Total energy = 2445.7427 kcal/mol (2443.9494 without restraints) Performing minimization step: 3792. Total energy = 2444.5840 kcal/mol (2442.7907 without restraints) Performing minimization step: 3793. Total energy = 2443.4256 kcal/mol (2441.6322 without restraints) Performing minimization step: 3794. Total energy = 2442.2676 kcal/mol (2440.4741 without restraints) Performing minimization step: 3795. Total energy = 2441.1100 kcal/mol (2439.3165 without restraints) Performing minimization step: 3796. Total energy = 2439.9529 kcal/mol (2438.1595 without restraints) Performing minimization step: 3797. Total energy = 2438.7959 kcal/mol (2437.0023 without restraints) Performing minimization step: 3798. Total energy = 2437.6390 kcal/mol (2435.8454 without restraints) Performing minimization step: 3799. Total energy = 2436.4825 kcal/mol (2434.6888 without restraints) Performing minimization step: 3800. Total energy = 2435.3263 kcal/mol (2433.5326 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 3801. Total energy = 2434.1705 kcal/mol (2432.3767 without restraints) Performing minimization step: 3802. Total energy = 2433.0149 kcal/mol (2431.2210 without restraints) Performing minimization step: 3803. Total energy = 2431.8597 kcal/mol (2430.0658 without restraints) Performing minimization step: 3804. Total energy = 2430.7047 kcal/mol (2428.9107 without restraints) Performing minimization step: 3805. Total energy = 2429.5501 kcal/mol (2427.7560 without restraints) Performing minimization step: 3806. Total energy = 2428.3957 kcal/mol (2426.6016 without restraints) Performing minimization step: 3807. Total energy = 2427.2417 kcal/mol (2425.4476 without restraints) Performing minimization step: 3808. Total energy = 2426.0880 kcal/mol (2424.2938 without restraints) Performing minimization step: 3809. Total energy = 2424.9346 kcal/mol (2423.1403 without restraints) Performing minimization step: 3810. Total energy = 2423.7815 kcal/mol (2421.9872 without restraints) Performing minimization step: 3811. Total energy = 2422.6287 kcal/mol (2420.8344 without restraints) Performing minimization step: 3812. Total energy = 2421.4762 kcal/mol (2419.6818 without restraints) Performing minimization step: 3813. Total energy = 2420.3240 kcal/mol (2418.5296 without restraints) Performing minimization step: 3814. Total energy = 2419.1722 kcal/mol (2417.3777 without restraints) Performing minimization step: 3815. Total energy = 2418.0206 kcal/mol (2416.2261 without restraints) Performing minimization step: 3816. Total energy = 2416.8695 kcal/mol (2415.0750 without restraints) Performing minimization step: 3817. Total energy = 2415.7187 kcal/mol (2413.9241 without restraints) Performing minimization step: 3818. Total energy = 2414.5683 kcal/mol (2412.7737 without restraints) Performing minimization step: 3819. Total energy = 2413.4180 kcal/mol (2411.6233 without restraints) Performing minimization step: 3820. Total energy = 2412.2680 kcal/mol (2410.4733 without restraints) Performing minimization step: 3821. Total energy = 2411.1184 kcal/mol (2409.3236 without restraints) Performing minimization step: 3822. Total energy = 2409.9690 kcal/mol (2408.1742 without restraints) Performing minimization step: 3823. Total energy = 2408.8199 kcal/mol (2407.0250 without restraints) Performing minimization step: 3824. Total energy = 2407.6713 kcal/mol (2405.8764 without restraints) Performing minimization step: 3825. Total energy = 2406.5229 kcal/mol (2404.7280 without restraints) Performing minimization step: 3826. Total energy = 2405.3748 kcal/mol (2403.5798 without restraints) Performing minimization step: 3827. Total energy = 2404.2270 kcal/mol (2402.4320 without restraints) Performing minimization step: 3828. Total energy = 2403.0795 kcal/mol (2401.2844 without restraints) Performing minimization step: 3829. Total energy = 2401.9323 kcal/mol (2400.1372 without restraints) Performing minimization step: 3830. Total energy = 2400.7855 kcal/mol (2398.9903 without restraints) Performing minimization step: 3831. Total energy = 2399.6389 kcal/mol (2397.8437 without restraints) Performing minimization step: 3832. Total energy = 2398.4929 kcal/mol (2396.6976 without restraints) Performing minimization step: 3833. Total energy = 2397.3469 kcal/mol (2395.5516 without restraints) Performing minimization step: 3834. Total energy = 2396.2013 kcal/mol (2394.4060 without restraints) Performing minimization step: 3835. Total energy = 2395.0560 kcal/mol (2393.2606 without restraints) Performing minimization step: 3836. Total energy = 2393.9108 kcal/mol (2392.1154 without restraints) Performing minimization step: 3837. Total energy = 2392.7662 kcal/mol (2390.9707 without restraints) Performing minimization step: 3838. Total energy = 2391.6218 kcal/mol (2389.8263 without restraints) Performing minimization step: 3839. Total energy = 2390.4782 kcal/mol (2388.6827 without restraints) Performing minimization step: 3840. Total energy = 2389.3345 kcal/mol (2387.5389 without restraints) Performing minimization step: 3841. Total energy = 2388.1910 kcal/mol (2386.3954 without restraints) Performing minimization step: 3842. Total energy = 2387.0481 kcal/mol (2385.2524 without restraints) Performing minimization step: 3843. Total energy = 2385.9053 kcal/mol (2384.1096 without restraints) Performing minimization step: 3844. Total energy = 2384.7628 kcal/mol (2382.9671 without restraints) Performing minimization step: 3845. Total energy = 2383.6206 kcal/mol (2381.8249 without restraints) Performing minimization step: 3846. Total energy = 2382.4788 kcal/mol (2380.6830 without restraints) Performing minimization step: 3847. Total energy = 2381.3373 kcal/mol (2379.5414 without restraints) Performing minimization step: 3848. Total energy = 2380.1961 kcal/mol (2378.4002 without restraints) Performing minimization step: 3849. Total energy = 2379.0551 kcal/mol (2377.2592 without restraints) Performing minimization step: 3850. Total energy = 2377.9145 kcal/mol (2376.1186 without restraints) Performing minimization step: 3851. Total energy = 2376.7742 kcal/mol (2374.9782 without restraints) Performing minimization step: 3852. Total energy = 2375.6343 kcal/mol (2373.8382 without restraints) Performing minimization step: 3853. Total energy = 2374.4947 kcal/mol (2372.6988 without restraints) Performing minimization step: 3854. Total energy = 2373.3555 kcal/mol (2371.5594 without restraints) Performing minimization step: 3855. Total energy = 2372.2165 kcal/mol (2370.4203 without restraints) Performing minimization step: 3856. Total energy = 2371.0778 kcal/mol (2369.2816 without restraints) Performing minimization step: 3857. Total energy = 2369.9394 kcal/mol (2368.1431 without restraints) Performing minimization step: 3858. Total energy = 2368.8013 kcal/mol (2367.0050 without restraints) Performing minimization step: 3859. Total energy = 2367.6635 kcal/mol (2365.8672 without restraints) Performing minimization step: 3860. Total energy = 2366.5260 kcal/mol (2364.7297 without restraints) Performing minimization step: 3861. Total energy = 2365.3889 kcal/mol (2363.5925 without restraints) Performing minimization step: 3862. Total energy = 2364.2520 kcal/mol (2362.4556 without restraints) Performing minimization step: 3863. Total energy = 2363.1155 kcal/mol (2361.3191 without restraints) Performing minimization step: 3864. Total energy = 2361.9793 kcal/mol (2360.1828 without restraints) Performing minimization step: 3865. Total energy = 2360.8434 kcal/mol (2359.0469 without restraints) Performing minimization step: 3866. Total energy = 2359.7078 kcal/mol (2357.9113 without restraints) Performing minimization step: 3867. Total energy = 2358.5726 kcal/mol (2356.7760 without restraints) Performing minimization step: 3868. Total energy = 2357.4376 kcal/mol (2355.6410 without restraints) Performing minimization step: 3869. Total energy = 2356.3030 kcal/mol (2354.5064 without restraints) Performing minimization step: 3870. Total energy = 2355.1687 kcal/mol (2353.3720 without restraints) Performing minimization step: 3871. Total energy = 2354.0347 kcal/mol (2352.2380 without restraints) Performing minimization step: 3872. Total energy = 2352.9010 kcal/mol (2351.1043 without restraints) Performing minimization step: 3873. Total energy = 2351.7677 kcal/mol (2349.9709 without restraints) Performing minimization step: 3874. Total energy = 2350.6346 kcal/mol (2348.8378 without restraints) Performing minimization step: 3875. Total energy = 2349.5024 kcal/mol (2347.7055 without restraints) Performing minimization step: 3876. Total energy = 2348.3699 kcal/mol (2346.5731 without restraints) Performing minimization step: 3877. Total energy = 2347.2379 kcal/mol (2345.4410 without restraints) Performing minimization step: 3878. Total energy = 2346.1061 kcal/mol (2344.3092 without restraints) Performing minimization step: 3879. Total energy = 2344.9746 kcal/mol (2343.1777 without restraints) Performing minimization step: 3880. Total energy = 2343.8435 kcal/mol (2342.0465 without restraints) Performing minimization step: 3881. Total energy = 2342.7126 kcal/mol (2340.9156 without restraints) Performing minimization step: 3882. Total energy = 2341.5821 kcal/mol (2339.7851 without restraints) Performing minimization step: 3883. Total energy = 2340.4519 kcal/mol (2338.6549 without restraints) Performing minimization step: 3884. Total energy = 2339.3221 kcal/mol (2337.5250 without restraints) Performing minimization step: 3885. Total energy = 2338.1925 kcal/mol (2336.3954 without restraints) Performing minimization step: 3886. Total energy = 2337.0633 kcal/mol (2335.2662 without restraints) Performing minimization step: 3887. Total energy = 2335.9344 kcal/mol (2334.1373 without restraints) Performing minimization step: 3888. Total energy = 2334.8058 kcal/mol (2333.0086 without restraints) Performing minimization step: 3889. Total energy = 2333.6775 kcal/mol (2331.8803 without restraints) Performing minimization step: 3890. Total energy = 2332.5496 kcal/mol (2330.7523 without restraints) Performing minimization step: 3891. Total energy = 2331.4219 kcal/mol (2329.6247 without restraints) Performing minimization step: 3892. Total energy = 2330.2946 kcal/mol (2328.4973 without restraints) Performing minimization step: 3893. Total energy = 2329.1676 kcal/mol (2327.3703 without restraints) Performing minimization step: 3894. Total energy = 2328.0409 kcal/mol (2326.2436 without restraints) Performing minimization step: 3895. Total energy = 2326.9146 kcal/mol (2325.1172 without restraints) Performing minimization step: 3896. Total energy = 2325.7885 kcal/mol (2323.9911 without restraints) Performing minimization step: 3897. Total energy = 2324.6628 kcal/mol (2322.8654 without restraints) Performing minimization step: 3898. Total energy = 2323.5374 kcal/mol (2321.7399 without restraints) Performing minimization step: 3899. Total energy = 2322.4123 kcal/mol (2320.6148 without restraints) Performing minimization step: 3900. Total energy = 2321.2875 kcal/mol (2319.4900 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 3901. Total energy = 2320.1631 kcal/mol (2318.3656 without restraints) Performing minimization step: 3902. Total energy = 2319.0390 kcal/mol (2317.2416 without restraints) Performing minimization step: 3903. Total energy = 2317.9154 kcal/mol (2316.1178 without restraints) Performing minimization step: 3904. Total energy = 2316.7919 kcal/mol (2314.9943 without restraints) Performing minimization step: 3905. Total energy = 2315.6687 kcal/mol (2313.8711 without restraints) Performing minimization step: 3906. Total energy = 2314.5458 kcal/mol (2312.7482 without restraints) Performing minimization step: 3907. Total energy = 2313.4233 kcal/mol (2311.6257 without restraints) Performing minimization step: 3908. Total energy = 2312.3011 kcal/mol (2310.5034 without restraints) Performing minimization step: 3909. Total energy = 2311.1792 kcal/mol (2309.3815 without restraints) Performing minimization step: 3910. Total energy = 2310.0577 kcal/mol (2308.2599 without restraints) Performing minimization step: 3911. Total energy = 2308.9364 kcal/mol (2307.1387 without restraints) Performing minimization step: 3912. Total energy = 2307.8155 kcal/mol (2306.0177 without restraints) Performing minimization step: 3913. Total energy = 2306.6949 kcal/mol (2304.8971 without restraints) Performing minimization step: 3914. Total energy = 2305.5746 kcal/mol (2303.7768 without restraints) Performing minimization step: 3915. Total energy = 2304.4547 kcal/mol (2302.6568 without restraints) Performing minimization step: 3916. Total energy = 2303.3350 kcal/mol (2301.5372 without restraints) Performing minimization step: 3917. Total energy = 2302.2157 kcal/mol (2300.4179 without restraints) Performing minimization step: 3918. Total energy = 2301.0967 kcal/mol (2299.2989 without restraints) Performing minimization step: 3919. Total energy = 2299.9779 kcal/mol (2298.1800 without restraints) Performing minimization step: 3920. Total energy = 2298.8595 kcal/mol (2297.0616 without restraints) Performing minimization step: 3921. Total energy = 2297.7415 kcal/mol (2295.9436 without restraints) Performing minimization step: 3922. Total energy = 2296.6238 kcal/mol (2294.8259 without restraints) Performing minimization step: 3923. Total energy = 2295.5065 kcal/mol (2293.7085 without restraints) Performing minimization step: 3924. Total energy = 2294.3895 kcal/mol (2292.5916 without restraints) Performing minimization step: 3925. Total energy = 2293.2729 kcal/mol (2291.4749 without restraints) Performing minimization step: 3926. Total energy = 2292.1565 kcal/mol (2290.3585 without restraints) Performing minimization step: 3927. Total energy = 2291.0405 kcal/mol (2289.2424 without restraints) Performing minimization step: 3928. Total energy = 2289.9250 kcal/mol (2288.1269 without restraints) Performing minimization step: 3929. Total energy = 2288.8096 kcal/mol (2287.0115 without restraints) Performing minimization step: 3930. Total energy = 2287.6945 kcal/mol (2285.8964 without restraints) Performing minimization step: 3931. Total energy = 2286.5797 kcal/mol (2284.7816 without restraints) Performing minimization step: 3932. Total energy = 2285.4652 kcal/mol (2283.6671 without restraints) Performing minimization step: 3933. Total energy = 2284.3511 kcal/mol (2282.5530 without restraints) Performing minimization step: 3934. Total energy = 2283.2373 kcal/mol (2281.4392 without restraints) Performing minimization step: 3935. Total energy = 2282.1239 kcal/mol (2280.3257 without restraints) Performing minimization step: 3936. Total energy = 2281.0107 kcal/mol (2279.2126 without restraints) Performing minimization step: 3937. Total energy = 2279.8979 kcal/mol (2278.0997 without restraints) Performing minimization step: 3938. Total energy = 2278.7854 kcal/mol (2276.9872 without restraints) Performing minimization step: 3939. Total energy = 2277.6733 kcal/mol (2275.8751 without restraints) Performing minimization step: 3940. Total energy = 2276.5614 kcal/mol (2274.7632 without restraints) Performing minimization step: 3941. Total energy = 2275.4499 kcal/mol (2273.6517 without restraints) Performing minimization step: 3942. Total energy = 2274.3387 kcal/mol (2272.5405 without restraints) Performing minimization step: 3943. Total energy = 2273.2279 kcal/mol (2271.4296 without restraints) Performing minimization step: 3944. Total energy = 2272.1174 kcal/mol (2270.3191 without restraints) Performing minimization step: 3945. Total energy = 2271.0072 kcal/mol (2269.2089 without restraints) Performing minimization step: 3946. Total energy = 2269.8973 kcal/mol (2268.0990 without restraints) Performing minimization step: 3947. Total energy = 2268.7878 kcal/mol (2266.9895 without restraints) Performing minimization step: 3948. Total energy = 2267.6786 kcal/mol (2265.8802 without restraints) Performing minimization step: 3949. Total energy = 2266.5697 kcal/mol (2264.7713 without restraints) Performing minimization step: 3950. Total energy = 2265.4611 kcal/mol (2263.6628 without restraints) Performing minimization step: 3951. Total energy = 2264.3529 kcal/mol (2262.5545 without restraints) Performing minimization step: 3952. Total energy = 2263.2450 kcal/mol (2261.4466 without restraints) Performing minimization step: 3953. Total energy = 2262.1374 kcal/mol (2260.3390 without restraints) Performing minimization step: 3954. Total energy = 2261.0301 kcal/mol (2259.2318 without restraints) Performing minimization step: 3955. Total energy = 2259.9232 kcal/mol (2258.1249 without restraints) Performing minimization step: 3956. Total energy = 2258.8166 kcal/mol (2257.0183 without restraints) Performing minimization step: 3957. Total energy = 2257.7104 kcal/mol (2255.9120 without restraints) Performing minimization step: 3958. Total energy = 2256.6045 kcal/mol (2254.8061 without restraints) Performing minimization step: 3959. Total energy = 2255.4989 kcal/mol (2253.7005 without restraints) Performing minimization step: 3960. Total energy = 2254.3936 kcal/mol (2252.5952 without restraints) Performing minimization step: 3961. Total energy = 2253.2887 kcal/mol (2251.4903 without restraints) Performing minimization step: 3962. Total energy = 2252.1841 kcal/mol (2250.3857 without restraints) Performing minimization step: 3963. Total energy = 2251.0798 kcal/mol (2249.2814 without restraints) Performing minimization step: 3964. Total energy = 2249.9759 kcal/mol (2248.1774 without restraints) Performing minimization step: 3965. Total energy = 2248.8723 kcal/mol (2247.0738 without restraints) Performing minimization step: 3966. Total energy = 2247.7690 kcal/mol (2245.9705 without restraints) Performing minimization step: 3967. Total energy = 2246.6660 kcal/mol (2244.8676 without restraints) Performing minimization step: 3968. Total energy = 2245.5636 kcal/mol (2243.7652 without restraints) Performing minimization step: 3969. Total energy = 2244.4613 kcal/mol (2242.6629 without restraints) Performing minimization step: 3970. Total energy = 2243.3594 kcal/mol (2241.5609 without restraints) Performing minimization step: 3971. Total energy = 2242.2580 kcal/mol (2240.4595 without restraints) Performing minimization step: 3972. Total energy = 2241.1567 kcal/mol (2239.3583 without restraints) Performing minimization step: 3973. Total energy = 2240.0558 kcal/mol (2238.2573 without restraints) Performing minimization step: 3974. Total energy = 2238.9552 kcal/mol (2237.1567 without restraints) Performing minimization step: 3975. Total energy = 2237.8549 kcal/mol (2236.0564 without restraints) Performing minimization step: 3976. Total energy = 2236.7550 kcal/mol (2234.9565 without restraints) Performing minimization step: 3977. Total energy = 2235.6554 kcal/mol (2233.8569 without restraints) Performing minimization step: 3978. Total energy = 2234.5561 kcal/mol (2232.7576 without restraints) Performing minimization step: 3979. Total energy = 2233.4571 kcal/mol (2231.6586 without restraints) Performing minimization step: 3980. Total energy = 2232.3585 kcal/mol (2230.5600 without restraints) Performing minimization step: 3981. Total energy = 2231.2602 kcal/mol (2229.4618 without restraints) Performing minimization step: 3982. Total energy = 2230.1625 kcal/mol (2228.3640 without restraints) Performing minimization step: 3983. Total energy = 2229.0649 kcal/mol (2227.2664 without restraints) Performing minimization step: 3984. Total energy = 2227.9677 kcal/mol (2226.1692 without restraints) Performing minimization step: 3985. Total energy = 2226.8708 kcal/mol (2225.0723 without restraints) Performing minimization step: 3986. Total energy = 2225.7742 kcal/mol (2223.9757 without restraints) Performing minimization step: 3987. Total energy = 2224.6779 kcal/mol (2222.8794 without restraints) Performing minimization step: 3988. Total energy = 2223.5820 kcal/mol (2221.7835 without restraints) Performing minimization step: 3989. Total energy = 2222.4867 kcal/mol (2220.6882 without restraints) Performing minimization step: 3990. Total energy = 2221.3914 kcal/mol (2219.5929 without restraints) Performing minimization step: 3991. Total energy = 2220.2965 kcal/mol (2218.4980 without restraints) Performing minimization step: 3992. Total energy = 2219.2021 kcal/mol (2217.4036 without restraints) Performing minimization step: 3993. Total energy = 2218.1076 kcal/mol (2216.3092 without restraints) Performing minimization step: 3994. Total energy = 2217.0137 kcal/mol (2215.2153 without restraints) Performing minimization step: 3995. Total energy = 2215.9202 kcal/mol (2214.1217 without restraints) Performing minimization step: 3996. Total energy = 2214.8269 kcal/mol (2213.0284 without restraints) Performing minimization step: 3997. Total energy = 2213.7340 kcal/mol (2211.9356 without restraints) Performing minimization step: 3998. Total energy = 2212.6415 kcal/mol (2210.8430 without restraints) Performing minimization step: 3999. Total energy = 2211.5494 kcal/mol (2209.7510 without restraints) Performing minimization step: 4000. Total energy = 2210.4576 kcal/mol (2208.6592 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 4001. Total energy = 2209.3664 kcal/mol (2207.5681 without restraints) Performing minimization step: 4002. Total energy = 2208.2754 kcal/mol (2206.4771 without restraints) Performing minimization step: 4003. Total energy = 2207.1847 kcal/mol (2205.3863 without restraints) Performing minimization step: 4004. Total energy = 2206.0942 kcal/mol (2204.2958 without restraints) Performing minimization step: 4005. Total energy = 2205.0040 kcal/mol (2203.2056 without restraints) Performing minimization step: 4006. Total energy = 2203.9142 kcal/mol (2202.1158 without restraints) Performing minimization step: 4007. Total energy = 2202.8247 kcal/mol (2201.0263 without restraints) Performing minimization step: 4008. Total energy = 2201.7355 kcal/mol (2199.9371 without restraints) Performing minimization step: 4009. Total energy = 2200.6467 kcal/mol (2198.8483 without restraints) Performing minimization step: 4010. Total energy = 2199.5582 kcal/mol (2197.7598 without restraints) Performing minimization step: 4011. Total energy = 2198.4701 kcal/mol (2196.6717 without restraints) Performing minimization step: 4012. Total energy = 2197.3823 kcal/mol (2195.5839 without restraints) Performing minimization step: 4013. Total energy = 2196.2949 kcal/mol (2194.4965 without restraints) Performing minimization step: 4014. Total energy = 2195.2079 kcal/mol (2193.4096 without restraints) Performing minimization step: 4015. Total energy = 2194.1212 kcal/mol (2192.3229 without restraints) Performing minimization step: 4016. Total energy = 2193.0348 kcal/mol (2191.2365 without restraints) Performing minimization step: 4017. Total energy = 2191.9487 kcal/mol (2190.1504 without restraints) Performing minimization step: 4018. Total energy = 2190.8630 kcal/mol (2189.0647 without restraints) Performing minimization step: 4019. Total energy = 2189.7776 kcal/mol (2187.9793 without restraints) Performing minimization step: 4020. Total energy = 2188.6926 kcal/mol (2186.8943 without restraints) Performing minimization step: 4021. Total energy = 2187.6079 kcal/mol (2185.8096 without restraints) Performing minimization step: 4022. Total energy = 2186.5235 kcal/mol (2184.7253 without restraints) Performing minimization step: 4023. Total energy = 2185.4396 kcal/mol (2183.6413 without restraints) Performing minimization step: 4024. Total energy = 2184.3561 kcal/mol (2182.5579 without restraints) Performing minimization step: 4025. Total energy = 2183.2728 kcal/mol (2181.4745 without restraints) Performing minimization step: 4026. Total energy = 2182.1898 kcal/mol (2180.3916 without restraints) Performing minimization step: 4027. Total energy = 2181.1072 kcal/mol (2179.3090 without restraints) Performing minimization step: 4028. Total energy = 2180.0249 kcal/mol (2178.2267 without restraints) Performing minimization step: 4029. Total energy = 2178.9430 kcal/mol (2177.1448 without restraints) Performing minimization step: 4030. Total energy = 2177.8614 kcal/mol (2176.0632 without restraints) Performing minimization step: 4031. Total energy = 2176.7803 kcal/mol (2174.9822 without restraints) Performing minimization step: 4032. Total energy = 2175.6994 kcal/mol (2173.9013 without restraints) Performing minimization step: 4033. Total energy = 2174.6190 kcal/mol (2172.8210 without restraints) Performing minimization step: 4034. Total energy = 2173.5389 kcal/mol (2171.7408 without restraints) Performing minimization step: 4035. Total energy = 2172.4591 kcal/mol (2170.6610 without restraints) Performing minimization step: 4036. Total energy = 2171.3796 kcal/mol (2169.5815 without restraints) Performing minimization step: 4037. Total energy = 2170.3004 kcal/mol (2168.5023 without restraints) Performing minimization step: 4038. Total energy = 2169.2216 kcal/mol (2167.4235 without restraints) Performing minimization step: 4039. Total energy = 2168.1431 kcal/mol (2166.3451 without restraints) Performing minimization step: 4040. Total energy = 2167.0650 kcal/mol (2165.2670 without restraints) Performing minimization step: 4041. Total energy = 2165.9873 kcal/mol (2164.1892 without restraints) Performing minimization step: 4042. Total energy = 2164.9098 kcal/mol (2163.1118 without restraints) Performing minimization step: 4043. Total energy = 2163.8328 kcal/mol (2162.0348 without restraints) Performing minimization step: 4044. Total energy = 2162.7560 kcal/mol (2160.9581 without restraints) Performing minimization step: 4045. Total energy = 2161.6798 kcal/mol (2159.8819 without restraints) Performing minimization step: 4046. Total energy = 2160.6038 kcal/mol (2158.8059 without restraints) Performing minimization step: 4047. Total energy = 2159.5281 kcal/mol (2157.7302 without restraints) Performing minimization step: 4048. Total energy = 2158.4528 kcal/mol (2156.6549 without restraints) Performing minimization step: 4049. Total energy = 2157.3779 kcal/mol (2155.5800 without restraints) Performing minimization step: 4050. Total energy = 2156.3032 kcal/mol (2154.5054 without restraints) Performing minimization step: 4051. Total energy = 2155.2290 kcal/mol (2153.4311 without restraints) Performing minimization step: 4052. Total energy = 2154.1550 kcal/mol (2152.3572 without restraints) Performing minimization step: 4053. Total energy = 2153.0815 kcal/mol (2151.2837 without restraints) Performing minimization step: 4054. Total energy = 2152.0083 kcal/mol (2150.2105 without restraints) Performing minimization step: 4055. Total energy = 2150.9354 kcal/mol (2149.1376 without restraints) Performing minimization step: 4056. Total energy = 2149.8629 kcal/mol (2148.0652 without restraints) Performing minimization step: 4057. Total energy = 2148.7908 kcal/mol (2146.9931 without restraints) Performing minimization step: 4058. Total energy = 2147.7190 kcal/mol (2145.9213 without restraints) Performing minimization step: 4059. Total energy = 2146.6475 kcal/mol (2144.8499 without restraints) Performing minimization step: 4060. Total energy = 2145.5764 kcal/mol (2143.7788 without restraints) Performing minimization step: 4061. Total energy = 2144.5057 kcal/mol (2142.7081 without restraints) Performing minimization step: 4062. Total energy = 2143.4354 kcal/mol (2141.6379 without restraints) Performing minimization step: 4063. Total energy = 2142.3655 kcal/mol (2140.5679 without restraints) Performing minimization step: 4064. Total energy = 2141.2958 kcal/mol (2139.4982 without restraints) Performing minimization step: 4065. Total energy = 2140.2264 kcal/mol (2138.4289 without restraints) Performing minimization step: 4066. Total energy = 2139.1575 kcal/mol (2137.3600 without restraints) Performing minimization step: 4067. Total energy = 2138.0888 kcal/mol (2136.2914 without restraints) Performing minimization step: 4068. Total energy = 2137.0206 kcal/mol (2135.2231 without restraints) Performing minimization step: 4069. Total energy = 2135.9527 kcal/mol (2134.1552 without restraints) Performing minimization step: 4070. Total energy = 2134.8851 kcal/mol (2133.0877 without restraints) Performing minimization step: 4071. Total energy = 2133.8179 kcal/mol (2132.0205 without restraints) Performing minimization step: 4072. Total energy = 2132.7512 kcal/mol (2130.9539 without restraints) Performing minimization step: 4073. Total energy = 2131.6848 kcal/mol (2129.8874 without restraints) Performing minimization step: 4074. Total energy = 2130.6186 kcal/mol (2128.8213 without restraints) Performing minimization step: 4075. Total energy = 2129.5529 kcal/mol (2127.7556 without restraints) Performing minimization step: 4076. Total energy = 2128.4874 kcal/mol (2126.6902 without restraints) Performing minimization step: 4077. Total energy = 2127.4224 kcal/mol (2125.6252 without restraints) Performing minimization step: 4078. Total energy = 2126.3577 kcal/mol (2124.5605 without restraints) Performing minimization step: 4079. Total energy = 2125.2935 kcal/mol (2123.4964 without restraints) Performing minimization step: 4080. Total energy = 2124.2296 kcal/mol (2122.4324 without restraints) Performing minimization step: 4081. Total energy = 2123.1659 kcal/mol (2121.3688 without restraints) Performing minimization step: 4082. Total energy = 2122.1027 kcal/mol (2120.3056 without restraints) Performing minimization step: 4083. Total energy = 2121.0396 kcal/mol (2119.2423 without restraints) Performing minimization step: 4084. Total energy = 2119.9768 kcal/mol (2118.1798 without restraints) Performing minimization step: 4085. Total energy = 2118.9147 kcal/mol (2117.1177 without restraints) Performing minimization step: 4086. Total energy = 2117.8529 kcal/mol (2116.0559 without restraints) Performing minimization step: 4087. Total energy = 2116.7916 kcal/mol (2114.9946 without restraints) Performing minimization step: 4088. Total energy = 2115.7305 kcal/mol (2113.9336 without restraints) Performing minimization step: 4089. Total energy = 2114.6697 kcal/mol (2112.8729 without restraints) Performing minimization step: 4090. Total energy = 2113.6093 kcal/mol (2111.8123 without restraints) Performing minimization step: 4091. Total energy = 2112.5491 kcal/mol (2110.7523 without restraints) Performing minimization step: 4092. Total energy = 2111.4895 kcal/mol (2109.6927 without restraints) Performing minimization step: 4093. Total energy = 2110.4302 kcal/mol (2108.6334 without restraints) Performing minimization step: 4094. Total energy = 2109.3712 kcal/mol (2107.5745 without restraints) Performing minimization step: 4095. Total energy = 2108.3127 kcal/mol (2106.5160 without restraints) Performing minimization step: 4096. Total energy = 2107.2542 kcal/mol (2105.4576 without restraints) Performing minimization step: 4097. Total energy = 2106.1966 kcal/mol (2104.4000 without restraints) Performing minimization step: 4098. Total energy = 2105.1391 kcal/mol (2103.3425 without restraints) Performing minimization step: 4099. Total energy = 2104.0820 kcal/mol (2102.2855 without restraints) Performing minimization step: 4100. Total energy = 2103.0253 kcal/mol (2101.2287 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 4101. Total energy = 2101.9689 kcal/mol (2100.1724 without restraints) Performing minimization step: 4102. Total energy = 2100.9128 kcal/mol (2099.1164 without restraints) Performing minimization step: 4103. Total energy = 2099.8572 kcal/mol (2098.0607 without restraints) Performing minimization step: 4104. Total energy = 2098.8018 kcal/mol (2097.0055 without restraints) Performing minimization step: 4105. Total energy = 2097.7471 kcal/mol (2095.9508 without restraints) Performing minimization step: 4106. Total energy = 2096.6925 kcal/mol (2094.8962 without restraints) Performing minimization step: 4107. Total energy = 2095.6383 kcal/mol (2093.8421 without restraints) Performing minimization step: 4108. Total energy = 2094.5845 kcal/mol (2092.7882 without restraints) Performing minimization step: 4109. Total energy = 2093.5310 kcal/mol (2091.7348 without restraints) Performing minimization step: 4110. Total energy = 2092.4779 kcal/mol (2090.6817 without restraints) Performing minimization step: 4111. Total energy = 2091.4252 kcal/mol (2089.6290 without restraints) Performing minimization step: 4112. Total energy = 2090.3728 kcal/mol (2088.5767 without restraints) Performing minimization step: 4113. Total energy = 2089.3208 kcal/mol (2087.5247 without restraints) Performing minimization step: 4114. Total energy = 2088.2691 kcal/mol (2086.4731 without restraints) Performing minimization step: 4115. Total energy = 2087.2178 kcal/mol (2085.4219 without restraints) Performing minimization step: 4116. Total energy = 2086.1669 kcal/mol (2084.3710 without restraints) Performing minimization step: 4117. Total energy = 2085.1164 kcal/mol (2083.3205 without restraints) Performing minimization step: 4118. Total energy = 2084.0662 kcal/mol (2082.2703 without restraints) Performing minimization step: 4119. Total energy = 2083.0164 kcal/mol (2081.2206 without restraints) Performing minimization step: 4120. Total energy = 2081.9668 kcal/mol (2080.1710 without restraints) Performing minimization step: 4121. Total energy = 2080.9179 kcal/mol (2079.1222 without restraints) Performing minimization step: 4122. Total energy = 2079.8692 kcal/mol (2078.0735 without restraints) Performing minimization step: 4123. Total energy = 2078.8209 kcal/mol (2077.0252 without restraints) Performing minimization step: 4124. Total energy = 2077.7729 kcal/mol (2075.9773 without restraints) Performing minimization step: 4125. Total energy = 2076.7253 kcal/mol (2074.9297 without restraints) Performing minimization step: 4126. Total energy = 2075.6781 kcal/mol (2073.8826 without restraints) Performing minimization step: 4127. Total energy = 2074.6315 kcal/mol (2072.8360 without restraints) Performing minimization step: 4128. Total energy = 2073.5851 kcal/mol (2071.7896 without restraints) Performing minimization step: 4129. Total energy = 2072.5392 kcal/mol (2070.7437 without restraints) Performing minimization step: 4130. Total energy = 2071.4934 kcal/mol (2069.6980 without restraints) Performing minimization step: 4131. Total energy = 2070.4481 kcal/mol (2068.6527 without restraints) Performing minimization step: 4132. Total energy = 2069.4031 kcal/mol (2067.6078 without restraints) Performing minimization step: 4133. Total energy = 2068.3584 kcal/mol (2066.5632 without restraints) Performing minimization step: 4134. Total energy = 2067.3139 kcal/mol (2065.5187 without restraints) Performing minimization step: 4135. Total energy = 2066.2700 kcal/mol (2064.4749 without restraints) Performing minimization step: 4136. Total energy = 2065.2265 kcal/mol (2063.4314 without restraints) Performing minimization step: 4137. Total energy = 2064.1834 kcal/mol (2062.3883 without restraints) Performing minimization step: 4138. Total energy = 2063.1407 kcal/mol (2061.3456 without restraints) Performing minimization step: 4139. Total energy = 2062.0983 kcal/mol (2060.3033 without restraints) Performing minimization step: 4140. Total energy = 2061.0563 kcal/mol (2059.2613 without restraints) Performing minimization step: 4141. Total energy = 2060.0146 kcal/mol (2058.2197 without restraints) Performing minimization step: 4142. Total energy = 2058.9734 kcal/mol (2057.1785 without restraints) Performing minimization step: 4143. Total energy = 2057.9325 kcal/mol (2056.1377 without restraints) Performing minimization step: 4144. Total energy = 2056.8920 kcal/mol (2055.0972 without restraints) Performing minimization step: 4145. Total energy = 2055.8518 kcal/mol (2054.0571 without restraints) Performing minimization step: 4146. Total energy = 2054.8121 kcal/mol (2053.0174 without restraints) Performing minimization step: 4147. Total energy = 2053.7727 kcal/mol (2051.9781 without restraints) Performing minimization step: 4148. Total energy = 2052.7337 kcal/mol (2050.9391 without restraints) Performing minimization step: 4149. Total energy = 2051.6951 kcal/mol (2049.9006 without restraints) Performing minimization step: 4150. Total energy = 2050.6568 kcal/mol (2048.8624 without restraints) Performing minimization step: 4151. Total energy = 2049.6190 kcal/mol (2047.8245 without restraints) Performing minimization step: 4152. Total energy = 2048.5816 kcal/mol (2046.7873 without restraints) Performing minimization step: 4153. Total energy = 2047.5445 kcal/mol (2045.7502 without restraints) Performing minimization step: 4154. Total energy = 2046.5077 kcal/mol (2044.7134 without restraints) Performing minimization step: 4155. Total energy = 2045.4713 kcal/mol (2043.6771 without restraints) Performing minimization step: 4156. Total energy = 2044.4353 kcal/mol (2042.6411 without restraints) Performing minimization step: 4157. Total energy = 2043.3997 kcal/mol (2041.6056 without restraints) Performing minimization step: 4158. Total energy = 2042.3645 kcal/mol (2040.5704 without restraints) Performing minimization step: 4159. Total energy = 2041.3296 kcal/mol (2039.5356 without restraints) Performing minimization step: 4160. Total energy = 2040.2951 kcal/mol (2038.5012 without restraints) Performing minimization step: 4161. Total energy = 2039.2614 kcal/mol (2037.4675 without restraints) Performing minimization step: 4162. Total energy = 2038.2277 kcal/mol (2036.4338 without restraints) Performing minimization step: 4163. Total energy = 2037.1947 kcal/mol (2035.4009 without restraints) Performing minimization step: 4164. Total energy = 2036.1617 kcal/mol (2034.3680 without restraints) Performing minimization step: 4165. Total energy = 2035.1292 kcal/mol (2033.3355 without restraints) Performing minimization step: 4166. Total energy = 2034.0970 kcal/mol (2032.3033 without restraints) Performing minimization step: 4167. Total energy = 2033.0653 kcal/mol (2031.2718 without restraints) Performing minimization step: 4168. Total energy = 2032.0339 kcal/mol (2030.2404 without restraints) Performing minimization step: 4169. Total energy = 2031.0029 kcal/mol (2029.2094 without restraints) Performing minimization step: 4170. Total energy = 2029.9724 kcal/mol (2028.1791 without restraints) Performing minimization step: 4171. Total energy = 2028.9423 kcal/mol (2027.1489 without restraints) Performing minimization step: 4172. Total energy = 2027.9124 kcal/mol (2026.1190 without restraints) Performing minimization step: 4173. Total energy = 2026.8828 kcal/mol (2025.0896 without restraints) Performing minimization step: 4174. Total energy = 2025.8537 kcal/mol (2024.0605 without restraints) Performing minimization step: 4175. Total energy = 2024.8249 kcal/mol (2023.0318 without restraints) Performing minimization step: 4176. Total energy = 2023.7966 kcal/mol (2022.0035 without restraints) Performing minimization step: 4177. Total energy = 2022.7686 kcal/mol (2020.9755 without restraints) Performing minimization step: 4178. Total energy = 2021.7410 kcal/mol (2019.9480 without restraints) Performing minimization step: 4179. Total energy = 2020.7138 kcal/mol (2018.9209 without restraints) Performing minimization step: 4180. Total energy = 2019.6869 kcal/mol (2017.8941 without restraints) Performing minimization step: 4181. Total energy = 2018.6605 kcal/mol (2016.8677 without restraints) Performing minimization step: 4182. Total energy = 2017.6344 kcal/mol (2015.8417 without restraints) Performing minimization step: 4183. Total energy = 2016.6088 kcal/mol (2014.8161 without restraints) Performing minimization step: 4184. Total energy = 2015.5835 kcal/mol (2013.7908 without restraints) Performing minimization step: 4185. Total energy = 2014.5586 kcal/mol (2012.7660 without restraints) Performing minimization step: 4186. Total energy = 2013.5340 kcal/mol (2011.7415 without restraints) Performing minimization step: 4187. Total energy = 2012.5099 kcal/mol (2010.7174 without restraints) Performing minimization step: 4188. Total energy = 2011.4864 kcal/mol (2009.6940 without restraints) Performing minimization step: 4189. Total energy = 2010.4630 kcal/mol (2008.6707 without restraints) Performing minimization step: 4190. Total energy = 2009.4400 kcal/mol (2007.6477 without restraints) Performing minimization step: 4191. Total energy = 2008.4174 kcal/mol (2006.6252 without restraints) Performing minimization step: 4192. Total energy = 2007.3952 kcal/mol (2005.6031 without restraints) Performing minimization step: 4193. Total energy = 2006.3734 kcal/mol (2004.5813 without restraints) Performing minimization step: 4194. Total energy = 2005.3520 kcal/mol (2003.5600 without restraints) Performing minimization step: 4195. Total energy = 2004.3310 kcal/mol (2002.5390 without restraints) Performing minimization step: 4196. Total energy = 2003.3103 kcal/mol (2001.5184 without restraints) Performing minimization step: 4197. Total energy = 2002.2900 kcal/mol (2000.4982 without restraints) Performing minimization step: 4198. Total energy = 2001.2701 kcal/mol (1999.4784 without restraints) Performing minimization step: 4199. Total energy = 2000.2507 kcal/mol (1998.4589 without restraints) Performing minimization step: 4200. Total energy = 1999.2316 kcal/mol (1997.4399 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 4201. Total energy = 1998.2129 kcal/mol (1996.4213 without restraints) Performing minimization step: 4202. Total energy = 1997.1946 kcal/mol (1995.4031 without restraints) Performing minimization step: 4203. Total energy = 1996.1767 kcal/mol (1994.3852 without restraints) Performing minimization step: 4204. Total energy = 1995.1592 kcal/mol (1993.3678 without restraints) Performing minimization step: 4205. Total energy = 1994.1420 kcal/mol (1992.3507 without restraints) Performing minimization step: 4206. Total energy = 1993.1253 kcal/mol (1991.3340 without restraints) Performing minimization step: 4207. Total energy = 1992.1089 kcal/mol (1990.3177 without restraints) Performing minimization step: 4208. Total energy = 1991.0930 kcal/mol (1989.3018 without restraints) Performing minimization step: 4209. Total energy = 1990.0774 kcal/mol (1988.2863 without restraints) Performing minimization step: 4210. Total energy = 1989.0622 kcal/mol (1987.2712 without restraints) Performing minimization step: 4211. Total energy = 1988.0474 kcal/mol (1986.2565 without restraints) Performing minimization step: 4212. Total energy = 1987.0330 kcal/mol (1985.2422 without restraints) Performing minimization step: 4213. Total energy = 1986.0193 kcal/mol (1984.2285 without restraints) Performing minimization step: 4214. Total energy = 1985.0057 kcal/mol (1983.2150 without restraints) Performing minimization step: 4215. Total energy = 1983.9925 kcal/mol (1982.2018 without restraints) Performing minimization step: 4216. Total energy = 1982.9797 kcal/mol (1981.1891 without restraints) Performing minimization step: 4217. Total energy = 1981.9672 kcal/mol (1980.1767 without restraints) Performing minimization step: 4218. Total energy = 1980.9552 kcal/mol (1979.1648 without restraints) Performing minimization step: 4219. Total energy = 1979.9436 kcal/mol (1978.1532 without restraints) Performing minimization step: 4220. Total energy = 1978.9323 kcal/mol (1977.1420 without restraints) Performing minimization step: 4221. Total energy = 1977.9215 kcal/mol (1976.1313 without restraints) Performing minimization step: 4222. Total energy = 1976.9111 kcal/mol (1975.1209 without restraints) Performing minimization step: 4223. Total energy = 1975.9012 kcal/mol (1974.1111 without restraints) Performing minimization step: 4224. Total energy = 1974.8916 kcal/mol (1973.1015 without restraints) Performing minimization step: 4225. Total energy = 1973.8823 kcal/mol (1972.0923 without restraints) Performing minimization step: 4226. Total energy = 1972.8732 kcal/mol (1971.0833 without restraints) Performing minimization step: 4227. Total energy = 1971.8648 kcal/mol (1970.0749 without restraints) Performing minimization step: 4228. Total energy = 1970.8567 kcal/mol (1969.0669 without restraints) Performing minimization step: 4229. Total energy = 1969.8490 kcal/mol (1968.0594 without restraints) Performing minimization step: 4230. Total energy = 1968.8418 kcal/mol (1967.0522 without restraints) Performing minimization step: 4231. Total energy = 1967.8349 kcal/mol (1966.0454 without restraints) Performing minimization step: 4232. Total energy = 1966.8284 kcal/mol (1965.0389 without restraints) Performing minimization step: 4233. Total energy = 1965.8223 kcal/mol (1964.0329 without restraints) Performing minimization step: 4234. Total energy = 1964.8167 kcal/mol (1963.0273 without restraints) Performing minimization step: 4235. Total energy = 1963.8114 kcal/mol (1962.0221 without restraints) Performing minimization step: 4236. Total energy = 1962.8065 kcal/mol (1961.0173 without restraints) Performing minimization step: 4237. Total energy = 1961.8021 kcal/mol (1960.0131 without restraints) Performing minimization step: 4238. Total energy = 1960.7984 kcal/mol (1959.0094 without restraints) Performing minimization step: 4239. Total energy = 1959.7947 kcal/mol (1958.0058 without restraints) Performing minimization step: 4240. Total energy = 1958.7914 kcal/mol (1957.0026 without restraints) Performing minimization step: 4241. Total energy = 1957.7888 kcal/mol (1956.0000 without restraints) Performing minimization step: 4242. Total energy = 1956.7863 kcal/mol (1954.9976 without restraints) Performing minimization step: 4243. Total energy = 1955.7842 kcal/mol (1953.9956 without restraints) Performing minimization step: 4244. Total energy = 1954.7825 kcal/mol (1952.9940 without restraints) Performing minimization step: 4245. Total energy = 1953.7813 kcal/mol (1951.9928 without restraints) Performing minimization step: 4246. Total energy = 1952.7804 kcal/mol (1950.9920 without restraints) Performing minimization step: 4247. Total energy = 1951.7799 kcal/mol (1949.9916 without restraints) Performing minimization step: 4248. Total energy = 1950.7799 kcal/mol (1948.9916 without restraints) Performing minimization step: 4249. Total energy = 1949.7802 kcal/mol (1947.9920 without restraints) Performing minimization step: 4250. Total energy = 1948.7812 kcal/mol (1946.9931 without restraints) Performing minimization step: 4251. Total energy = 1947.7823 kcal/mol (1945.9943 without restraints) Performing minimization step: 4252. Total energy = 1946.7839 kcal/mol (1944.9959 without restraints) Performing minimization step: 4253. Total energy = 1945.7858 kcal/mol (1943.9980 without restraints) Performing minimization step: 4254. Total energy = 1944.7882 kcal/mol (1943.0004 without restraints) Performing minimization step: 4255. Total energy = 1943.7909 kcal/mol (1942.0032 without restraints) Performing minimization step: 4256. Total energy = 1942.7941 kcal/mol (1941.0065 without restraints) Performing minimization step: 4257. Total energy = 1941.7977 kcal/mol (1940.0101 without restraints) Performing minimization step: 4258. Total energy = 1940.8017 kcal/mol (1939.0142 without restraints) Performing minimization step: 4259. Total energy = 1939.8061 kcal/mol (1938.0187 without restraints) Performing minimization step: 4260. Total energy = 1938.8109 kcal/mol (1937.0236 without restraints) Performing minimization step: 4261. Total energy = 1937.8161 kcal/mol (1936.0289 without restraints) Performing minimization step: 4262. Total energy = 1936.8217 kcal/mol (1935.0345 without restraints) Performing minimization step: 4263. Total energy = 1935.8279 kcal/mol (1934.0408 without restraints) Performing minimization step: 4264. Total energy = 1934.8343 kcal/mol (1933.0473 without restraints) Performing minimization step: 4265. Total energy = 1933.8412 kcal/mol (1932.0543 without restraints) Performing minimization step: 4266. Total energy = 1932.8484 kcal/mol (1931.0616 without restraints) Performing minimization step: 4267. Total energy = 1931.8562 kcal/mol (1930.0695 without restraints) Performing minimization step: 4268. Total energy = 1930.8643 kcal/mol (1929.0776 without restraints) Performing minimization step: 4269. Total energy = 1929.8727 kcal/mol (1928.0862 without restraints) Performing minimization step: 4270. Total energy = 1928.8816 kcal/mol (1927.0951 without restraints) Performing minimization step: 4271. Total energy = 1927.8908 kcal/mol (1926.1045 without restraints) Performing minimization step: 4272. Total energy = 1926.9005 kcal/mol (1925.1142 without restraints) Performing minimization step: 4273. Total energy = 1925.9106 kcal/mol (1924.1244 without restraints) Performing minimization step: 4274. Total energy = 1924.9211 kcal/mol (1923.1350 without restraints) Performing minimization step: 4275. Total energy = 1923.9320 kcal/mol (1922.1459 without restraints) Performing minimization step: 4276. Total energy = 1922.9433 kcal/mol (1921.1574 without restraints) Performing minimization step: 4277. Total energy = 1921.9551 kcal/mol (1920.1694 without restraints) Performing minimization step: 4278. Total energy = 1920.9674 kcal/mol (1919.1816 without restraints) Performing minimization step: 4279. Total energy = 1919.9799 kcal/mol (1918.1942 without restraints) Performing minimization step: 4280. Total energy = 1918.9929 kcal/mol (1917.2073 without restraints) Performing minimization step: 4281. Total energy = 1918.0066 kcal/mol (1916.2211 without restraints) Performing minimization step: 4282. Total energy = 1917.0204 kcal/mol (1915.2350 without restraints) Performing minimization step: 4283. Total energy = 1916.0346 kcal/mol (1914.2493 without restraints) Performing minimization step: 4284. Total energy = 1915.0492 kcal/mol (1913.2639 without restraints) Performing minimization step: 4285. Total energy = 1914.0642 kcal/mol (1912.2790 without restraints) Performing minimization step: 4286. Total energy = 1913.0796 kcal/mol (1911.2945 without restraints) Performing minimization step: 4287. Total energy = 1912.0956 kcal/mol (1910.3106 without restraints) Performing minimization step: 4288. Total energy = 1911.1119 kcal/mol (1909.3270 without restraints) Performing minimization step: 4289. Total energy = 1910.1285 kcal/mol (1908.3437 without restraints) Performing minimization step: 4290. Total energy = 1909.1456 kcal/mol (1907.3609 without restraints) Performing minimization step: 4291. Total energy = 1908.1629 kcal/mol (1906.3783 without restraints) Performing minimization step: 4292. Total energy = 1907.1808 kcal/mol (1905.3963 without restraints) Performing minimization step: 4293. Total energy = 1906.1991 kcal/mol (1904.4147 without restraints) Performing minimization step: 4294. Total energy = 1905.2178 kcal/mol (1903.4335 without restraints) Performing minimization step: 4295. Total energy = 1904.2370 kcal/mol (1902.4527 without restraints) Performing minimization step: 4296. Total energy = 1903.2565 kcal/mol (1901.4723 without restraints) Performing minimization step: 4297. Total energy = 1902.2764 kcal/mol (1900.4923 without restraints) Performing minimization step: 4298. Total energy = 1901.2968 kcal/mol (1899.5128 without restraints) Performing minimization step: 4299. Total energy = 1900.3176 kcal/mol (1898.5337 without restraints) Performing minimization step: 4300. Total energy = 1899.3388 kcal/mol (1897.5550 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 4301. Total energy = 1898.3604 kcal/mol (1896.5768 without restraints) Performing minimization step: 4302. Total energy = 1897.3825 kcal/mol (1895.5989 without restraints) Performing minimization step: 4303. Total energy = 1896.4050 kcal/mol (1894.6215 without restraints) Performing minimization step: 4304. Total energy = 1895.4282 kcal/mol (1893.6448 without restraints) Performing minimization step: 4305. Total energy = 1894.4515 kcal/mol (1892.6682 without restraints) Performing minimization step: 4306. Total energy = 1893.4753 kcal/mol (1891.6921 without restraints) Performing minimization step: 4307. Total energy = 1892.4994 kcal/mol (1890.7163 without restraints) Performing minimization step: 4308. Total energy = 1891.5240 kcal/mol (1889.7409 without restraints) Performing minimization step: 4309. Total energy = 1890.5489 kcal/mol (1888.7660 without restraints) Performing minimization step: 4310. Total energy = 1889.5743 kcal/mol (1887.7915 without restraints) Performing minimization step: 4311. Total energy = 1888.6001 kcal/mol (1886.8174 without restraints) Performing minimization step: 4312. Total energy = 1887.6264 kcal/mol (1885.8437 without restraints) Performing minimization step: 4313. Total energy = 1886.6530 kcal/mol (1884.8705 without restraints) Performing minimization step: 4314. Total energy = 1885.6801 kcal/mol (1883.8977 without restraints) Performing minimization step: 4315. Total energy = 1884.7076 kcal/mol (1882.9252 without restraints) Performing minimization step: 4316. Total energy = 1883.7355 kcal/mol (1881.9533 without restraints) Performing minimization step: 4317. Total energy = 1882.7638 kcal/mol (1880.9817 without restraints) Performing minimization step: 4318. Total energy = 1881.7926 kcal/mol (1880.0105 without restraints) Performing minimization step: 4319. Total energy = 1880.8217 kcal/mol (1879.0398 without restraints) Performing minimization step: 4320. Total energy = 1879.8514 kcal/mol (1878.0695 without restraints) Performing minimization step: 4321. Total energy = 1878.8814 kcal/mol (1877.0997 without restraints) Performing minimization step: 4322. Total energy = 1877.9118 kcal/mol (1876.1302 without restraints) Performing minimization step: 4323. Total energy = 1876.9427 kcal/mol (1875.1611 without restraints) Performing minimization step: 4324. Total energy = 1875.9741 kcal/mol (1874.1927 without restraints) Performing minimization step: 4325. Total energy = 1875.0058 kcal/mol (1873.2245 without restraints) Performing minimization step: 4326. Total energy = 1874.0379 kcal/mol (1872.2567 without restraints) Performing minimization step: 4327. Total energy = 1873.0705 kcal/mol (1871.2893 without restraints) Performing minimization step: 4328. Total energy = 1872.1034 kcal/mol (1870.3224 without restraints) Performing minimization step: 4329. Total energy = 1871.1370 kcal/mol (1869.3561 without restraints) Performing minimization step: 4330. Total energy = 1870.1707 kcal/mol (1868.3898 without restraints) Performing minimization step: 4331. Total energy = 1869.2049 kcal/mol (1867.4242 without restraints) Performing minimization step: 4332. Total energy = 1868.2395 kcal/mol (1866.4589 without restraints) Performing minimization step: 4333. Total energy = 1867.2745 kcal/mol (1865.4939 without restraints) Performing minimization step: 4334. Total energy = 1866.3100 kcal/mol (1864.5296 without restraints) Performing minimization step: 4335. Total energy = 1865.3459 kcal/mol (1863.5656 without restraints) Performing minimization step: 4336. Total energy = 1864.3823 kcal/mol (1862.6021 without restraints) Performing minimization step: 4337. Total energy = 1863.4190 kcal/mol (1861.6390 without restraints) Performing minimization step: 4338. Total energy = 1862.4563 kcal/mol (1860.6763 without restraints) Performing minimization step: 4339. Total energy = 1861.4939 kcal/mol (1859.7140 without restraints) Performing minimization step: 4340. Total energy = 1860.5320 kcal/mol (1858.7522 without restraints) Performing minimization step: 4341. Total energy = 1859.5707 kcal/mol (1857.7910 without restraints) Performing minimization step: 4342. Total energy = 1858.6096 kcal/mol (1856.8300 without restraints) Performing minimization step: 4343. Total energy = 1857.6489 kcal/mol (1855.8695 without restraints) Performing minimization step: 4344. Total energy = 1856.6890 kcal/mol (1854.9097 without restraints) Performing minimization step: 4345. Total energy = 1855.7292 kcal/mol (1853.9500 without restraints) Performing minimization step: 4346. Total energy = 1854.7699 kcal/mol (1852.9907 without restraints) Performing minimization step: 4347. Total energy = 1853.8109 kcal/mol (1852.0319 without restraints) Performing minimization step: 4348. Total energy = 1852.8525 kcal/mol (1851.0737 without restraints) Performing minimization step: 4349. Total energy = 1851.8945 kcal/mol (1850.1157 without restraints) Performing minimization step: 4350. Total energy = 1850.9370 kcal/mol (1849.1584 without restraints) Performing minimization step: 4351. Total energy = 1849.9799 kcal/mol (1848.2013 without restraints) Performing minimization step: 4352. Total energy = 1849.0231 kcal/mol (1847.2446 without restraints) Performing minimization step: 4353. Total energy = 1848.0667 kcal/mol (1846.2883 without restraints) Performing minimization step: 4354. Total energy = 1847.1108 kcal/mol (1845.3325 without restraints) Performing minimization step: 4355. Total energy = 1846.1552 kcal/mol (1844.3771 without restraints) Performing minimization step: 4356. Total energy = 1845.2002 kcal/mol (1843.4222 without restraints) Performing minimization step: 4357. Total energy = 1844.2456 kcal/mol (1842.4677 without restraints) Performing minimization step: 4358. Total energy = 1843.2913 kcal/mol (1841.5135 without restraints) Performing minimization step: 4359. Total energy = 1842.3375 kcal/mol (1840.5599 without restraints) Performing minimization step: 4360. Total energy = 1841.3842 kcal/mol (1839.6066 without restraints) Performing minimization step: 4361. Total energy = 1840.4312 kcal/mol (1838.6538 without restraints) Performing minimization step: 4362. Total energy = 1839.4787 kcal/mol (1837.7014 without restraints) Performing minimization step: 4363. Total energy = 1838.5267 kcal/mol (1836.7494 without restraints) Performing minimization step: 4364. Total energy = 1837.5750 kcal/mol (1835.7979 without restraints) Performing minimization step: 4365. Total energy = 1836.6238 kcal/mol (1834.8468 without restraints) Performing minimization step: 4366. Total energy = 1835.6730 kcal/mol (1833.8961 without restraints) Performing minimization step: 4367. Total energy = 1834.7227 kcal/mol (1832.9459 without restraints) Performing minimization step: 4368. Total energy = 1833.7728 kcal/mol (1831.9961 without restraints) Performing minimization step: 4369. Total energy = 1832.8233 kcal/mol (1831.0468 without restraints) Performing minimization step: 4370. Total energy = 1831.8743 kcal/mol (1830.0978 without restraints) Performing minimization step: 4371. Total energy = 1830.9254 kcal/mol (1829.1491 without restraints) Performing minimization step: 4372. Total energy = 1829.9772 kcal/mol (1828.2010 without restraints) Performing minimization step: 4373. Total energy = 1829.0295 kcal/mol (1827.2534 without restraints) Performing minimization step: 4374. Total energy = 1828.0822 kcal/mol (1826.3062 without restraints) Performing minimization step: 4375. Total energy = 1827.1353 kcal/mol (1825.3594 without restraints) Performing minimization step: 4376. Total energy = 1826.1889 kcal/mol (1824.4131 without restraints) Performing minimization step: 4377. Total energy = 1825.2429 kcal/mol (1823.4672 without restraints) Performing minimization step: 4378. Total energy = 1824.2973 kcal/mol (1822.5218 without restraints) Performing minimization step: 4379. Total energy = 1823.3521 kcal/mol (1821.5768 without restraints) Performing minimization step: 4380. Total energy = 1822.4074 kcal/mol (1820.6322 without restraints) Performing minimization step: 4381. Total energy = 1821.4632 kcal/mol (1819.6880 without restraints) Performing minimization step: 4382. Total energy = 1820.5196 kcal/mol (1818.7445 without restraints) Performing minimization step: 4383. Total energy = 1819.5762 kcal/mol (1817.8013 without restraints) Performing minimization step: 4384. Total energy = 1818.6332 kcal/mol (1816.8584 without restraints) Performing minimization step: 4385. Total energy = 1817.6907 kcal/mol (1815.9160 without restraints) Performing minimization step: 4386. Total energy = 1816.7486 kcal/mol (1814.9740 without restraints) Performing minimization step: 4387. Total energy = 1815.8069 kcal/mol (1814.0325 without restraints) Performing minimization step: 4388. Total energy = 1814.8660 kcal/mol (1813.0917 without restraints) Performing minimization step: 4389. Total energy = 1813.9252 kcal/mol (1812.1510 without restraints) Performing minimization step: 4390. Total energy = 1812.9849 kcal/mol (1811.2108 without restraints) Performing minimization step: 4391. Total energy = 1812.0450 kcal/mol (1810.2710 without restraints) Performing minimization step: 4392. Total energy = 1811.1055 kcal/mol (1809.3317 without restraints) Performing minimization step: 4393. Total energy = 1810.1665 kcal/mol (1808.3928 without restraints) Performing minimization step: 4394. Total energy = 1809.2279 kcal/mol (1807.4543 without restraints) Performing minimization step: 4395. Total energy = 1808.2898 kcal/mol (1806.5164 without restraints) Performing minimization step: 4396. Total energy = 1807.3521 kcal/mol (1805.5788 without restraints) Performing minimization step: 4397. Total energy = 1806.4148 kcal/mol (1804.6416 without restraints) Performing minimization step: 4398. Total energy = 1805.4783 kcal/mol (1803.7052 without restraints) Performing minimization step: 4399. Total energy = 1804.5419 kcal/mol (1802.7690 without restraints) Performing minimization step: 4400. Total energy = 1803.6060 kcal/mol (1801.8332 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 4401. Total energy = 1802.6705 kcal/mol (1800.8978 without restraints) Performing minimization step: 4402. Total energy = 1801.7354 kcal/mol (1799.9628 without restraints) Performing minimization step: 4403. Total energy = 1800.8008 kcal/mol (1799.0284 without restraints) Performing minimization step: 4404. Total energy = 1799.8666 kcal/mol (1798.0943 without restraints) Performing minimization step: 4405. Total energy = 1798.9329 kcal/mol (1797.1607 without restraints) Performing minimization step: 4406. Total energy = 1797.9996 kcal/mol (1796.2275 without restraints) Performing minimization step: 4407. Total energy = 1797.0667 kcal/mol (1795.2948 without restraints) Performing minimization step: 4408. Total energy = 1796.1343 kcal/mol (1794.3625 without restraints) Performing minimization step: 4409. Total energy = 1795.2023 kcal/mol (1793.4307 without restraints) Performing minimization step: 4410. Total energy = 1794.2708 kcal/mol (1792.4993 without restraints) Performing minimization step: 4411. Total energy = 1793.3397 kcal/mol (1791.5683 without restraints) Performing minimization step: 4412. Total energy = 1792.4091 kcal/mol (1790.6378 without restraints) Performing minimization step: 4413. Total energy = 1791.4789 kcal/mol (1789.7077 without restraints) Performing minimization step: 4414. Total energy = 1790.5491 kcal/mol (1788.7781 without restraints) Performing minimization step: 4415. Total energy = 1789.6198 kcal/mol (1787.8489 without restraints) Performing minimization step: 4416. Total energy = 1788.6909 kcal/mol (1786.9202 without restraints) Performing minimization step: 4417. Total energy = 1787.7625 kcal/mol (1785.9919 without restraints) Performing minimization step: 4418. Total energy = 1786.8345 kcal/mol (1785.0640 without restraints) Performing minimization step: 4419. Total energy = 1785.9070 kcal/mol (1784.1366 without restraints) Performing minimization step: 4420. Total energy = 1784.9799 kcal/mol (1783.2097 without restraints) Performing minimization step: 4421. Total energy = 1784.0533 kcal/mol (1782.2831 without restraints) Performing minimization step: 4422. Total energy = 1783.1272 kcal/mol (1781.3573 without restraints) Performing minimization step: 4423. Total energy = 1782.2016 kcal/mol (1780.4317 without restraints) Performing minimization step: 4424. Total energy = 1781.2765 kcal/mol (1779.5068 without restraints) Performing minimization step: 4425. Total energy = 1780.3516 kcal/mol (1778.5820 without restraints) Performing minimization step: 4426. Total energy = 1779.4272 kcal/mol (1777.6578 without restraints) Performing minimization step: 4427. Total energy = 1778.5036 kcal/mol (1776.7343 without restraints) Performing minimization step: 4428. Total energy = 1777.5801 kcal/mol (1775.8109 without restraints) Performing minimization step: 4429. Total energy = 1776.6570 kcal/mol (1774.8879 without restraints) Performing minimization step: 4430. Total energy = 1775.7344 kcal/mol (1773.9654 without restraints) Performing minimization step: 4431. Total energy = 1774.8122 kcal/mol (1773.0434 without restraints) Performing minimization step: 4432. Total energy = 1773.8904 kcal/mol (1772.1218 without restraints) Performing minimization step: 4433. Total energy = 1772.9692 kcal/mol (1771.2006 without restraints) Performing minimization step: 4434. Total energy = 1772.0487 kcal/mol (1770.2803 without restraints) Performing minimization step: 4435. Total energy = 1771.1283 kcal/mol (1769.3600 without restraints) Performing minimization step: 4436. Total energy = 1770.2083 kcal/mol (1768.4402 without restraints) Performing minimization step: 4437. Total energy = 1769.2888 kcal/mol (1767.5209 without restraints) Performing minimization step: 4438. Total energy = 1768.3698 kcal/mol (1766.6019 without restraints) Performing minimization step: 4439. Total energy = 1767.4512 kcal/mol (1765.6835 without restraints) Performing minimization step: 4440. Total energy = 1766.5330 kcal/mol (1764.7655 without restraints) Performing minimization step: 4441. Total energy = 1765.6153 kcal/mol (1763.8479 without restraints) Performing minimization step: 4442. Total energy = 1764.6981 kcal/mol (1762.9308 without restraints) Performing minimization step: 4443. Total energy = 1763.7813 kcal/mol (1762.0141 without restraints) Performing minimization step: 4444. Total energy = 1762.8652 kcal/mol (1761.0981 without restraints) Performing minimization step: 4445. Total energy = 1761.9493 kcal/mol (1760.1824 without restraints) Performing minimization step: 4446. Total energy = 1761.0338 kcal/mol (1759.2671 without restraints) Performing minimization step: 4447. Total energy = 1760.1188 kcal/mol (1758.3522 without restraints) Performing minimization step: 4448. Total energy = 1759.2043 kcal/mol (1757.4378 without restraints) Performing minimization step: 4449. Total energy = 1758.2902 kcal/mol (1756.5239 without restraints) Performing minimization step: 4450. Total energy = 1757.3765 kcal/mol (1755.6104 without restraints) Performing minimization step: 4451. Total energy = 1756.4633 kcal/mol (1754.6973 without restraints) Performing minimization step: 4452. Total energy = 1755.5506 kcal/mol (1753.7847 without restraints) Performing minimization step: 4453. Total energy = 1754.6383 kcal/mol (1752.8726 without restraints) Performing minimization step: 4454. Total energy = 1753.7265 kcal/mol (1751.9609 without restraints) Performing minimization step: 4455. Total energy = 1752.8153 kcal/mol (1751.0498 without restraints) Performing minimization step: 4456. Total energy = 1751.9044 kcal/mol (1750.1390 without restraints) Performing minimization step: 4457. Total energy = 1750.9939 kcal/mol (1749.2287 without restraints) Performing minimization step: 4458. Total energy = 1750.0839 kcal/mol (1748.3188 without restraints) Performing minimization step: 4459. Total energy = 1749.1743 kcal/mol (1747.4094 without restraints) Performing minimization step: 4460. Total energy = 1748.2652 kcal/mol (1746.5004 without restraints) Performing minimization step: 4461. Total energy = 1747.3565 kcal/mol (1745.5919 without restraints) Performing minimization step: 4462. Total energy = 1746.4483 kcal/mol (1744.6838 without restraints) Performing minimization step: 4463. Total energy = 1745.5405 kcal/mol (1743.7762 without restraints) Performing minimization step: 4464. Total energy = 1744.6332 kcal/mol (1742.8690 without restraints) Performing minimization step: 4465. Total energy = 1743.7263 kcal/mol (1741.9623 without restraints) Performing minimization step: 4466. Total energy = 1742.8199 kcal/mol (1741.0561 without restraints) Performing minimization step: 4467. Total energy = 1741.9144 kcal/mol (1740.1506 without restraints) Performing minimization step: 4468. Total energy = 1741.0089 kcal/mol (1739.2453 without restraints) Performing minimization step: 4469. Total energy = 1740.1036 kcal/mol (1738.3402 without restraints) Performing minimization step: 4470. Total energy = 1739.1991 kcal/mol (1737.4358 without restraints) Performing minimization step: 4471. Total energy = 1738.2949 kcal/mol (1736.5318 without restraints) Performing minimization step: 4472. Total energy = 1737.3913 kcal/mol (1735.6283 without restraints) Performing minimization step: 4473. Total energy = 1736.4881 kcal/mol (1734.7252 without restraints) Performing minimization step: 4474. Total energy = 1735.5854 kcal/mol (1733.8228 without restraints) Performing minimization step: 4475. Total energy = 1734.6832 kcal/mol (1732.9207 without restraints) Performing minimization step: 4476. Total energy = 1733.7814 kcal/mol (1732.0190 without restraints) Performing minimization step: 4477. Total energy = 1732.8800 kcal/mol (1731.1178 without restraints) Performing minimization step: 4478. Total energy = 1731.9791 kcal/mol (1730.2170 without restraints) Performing minimization step: 4479. Total energy = 1731.0786 kcal/mol (1729.3167 without restraints) Performing minimization step: 4480. Total energy = 1730.1786 kcal/mol (1728.4168 without restraints) Performing minimization step: 4481. Total energy = 1729.2790 kcal/mol (1727.5174 without restraints) Performing minimization step: 4482. Total energy = 1728.3800 kcal/mol (1726.6185 without restraints) Performing minimization step: 4483. Total energy = 1727.4814 kcal/mol (1725.7202 without restraints) Performing minimization step: 4484. Total energy = 1726.5833 kcal/mol (1724.8222 without restraints) Performing minimization step: 4485. Total energy = 1725.6856 kcal/mol (1723.9246 without restraints) Performing minimization step: 4486. Total energy = 1724.7884 kcal/mol (1723.0275 without restraints) Performing minimization step: 4487. Total energy = 1723.8916 kcal/mol (1722.1308 without restraints) Performing minimization step: 4488. Total energy = 1722.9952 kcal/mol (1721.2347 without restraints) Performing minimization step: 4489. Total energy = 1722.0994 kcal/mol (1720.3389 without restraints) Performing minimization step: 4490. Total energy = 1721.2041 kcal/mol (1719.4438 without restraints) Performing minimization step: 4491. Total energy = 1720.3092 kcal/mol (1718.5491 without restraints) Performing minimization step: 4492. Total energy = 1719.4147 kcal/mol (1717.6547 without restraints) Performing minimization step: 4493. Total energy = 1718.5207 kcal/mol (1716.7608 without restraints) Performing minimization step: 4494. Total energy = 1717.6271 kcal/mol (1715.8674 without restraints) Performing minimization step: 4495. Total energy = 1716.7339 kcal/mol (1714.9744 without restraints) Performing minimization step: 4496. Total energy = 1715.8413 kcal/mol (1714.0819 without restraints) Performing minimization step: 4497. Total energy = 1714.9491 kcal/mol (1713.1899 without restraints) Performing minimization step: 4498. Total energy = 1714.0573 kcal/mol (1712.2983 without restraints) Performing minimization step: 4499. Total energy = 1713.1661 kcal/mol (1711.4072 without restraints) Performing minimization step: 4500. Total energy = 1712.2752 kcal/mol (1710.5165 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 4501. Total energy = 1711.3849 kcal/mol (1709.6263 without restraints) Performing minimization step: 4502. Total energy = 1710.4950 kcal/mol (1708.7366 without restraints) Performing minimization step: 4503. Total energy = 1709.6056 kcal/mol (1707.8473 without restraints) Performing minimization step: 4504. Total energy = 1708.7166 kcal/mol (1706.9585 without restraints) Performing minimization step: 4505. Total energy = 1707.8281 kcal/mol (1706.0702 without restraints) Performing minimization step: 4506. Total energy = 1706.9400 kcal/mol (1705.1823 without restraints) Performing minimization step: 4507. Total energy = 1706.0525 kcal/mol (1704.2949 without restraints) Performing minimization step: 4508. Total energy = 1705.1654 kcal/mol (1703.4079 without restraints) Performing minimization step: 4509. Total energy = 1704.2787 kcal/mol (1702.5214 without restraints) Performing minimization step: 4510. Total energy = 1703.3928 kcal/mol (1701.6356 without restraints) Performing minimization step: 4511. Total energy = 1702.5070 kcal/mol (1700.7501 without restraints) Performing minimization step: 4512. Total energy = 1701.6218 kcal/mol (1699.8650 without restraints) Performing minimization step: 4513. Total energy = 1700.7370 kcal/mol (1698.9803 without restraints) Performing minimization step: 4514. Total energy = 1699.8526 kcal/mol (1698.0962 without restraints) Performing minimization step: 4515. Total energy = 1698.9688 kcal/mol (1697.2124 without restraints) Performing minimization step: 4516. Total energy = 1698.0854 kcal/mol (1696.3292 without restraints) Performing minimization step: 4517. Total energy = 1697.2024 kcal/mol (1695.4464 without restraints) Performing minimization step: 4518. Total energy = 1696.3199 kcal/mol (1694.5641 without restraints) Performing minimization step: 4519. Total energy = 1695.4379 kcal/mol (1693.6822 without restraints) Performing minimization step: 4520. Total energy = 1694.5565 kcal/mol (1692.8010 without restraints) Performing minimization step: 4521. Total energy = 1693.6755 kcal/mol (1691.9201 without restraints) Performing minimization step: 4522. Total energy = 1692.7948 kcal/mol (1691.0397 without restraints) Performing minimization step: 4523. Total energy = 1691.9147 kcal/mol (1690.1597 without restraints) Performing minimization step: 4524. Total energy = 1691.0350 kcal/mol (1689.2802 without restraints) Performing minimization step: 4525. Total energy = 1690.1560 kcal/mol (1688.4013 without restraints) Performing minimization step: 4526. Total energy = 1689.2773 kcal/mol (1687.5228 without restraints) Performing minimization step: 4527. Total energy = 1688.3990 kcal/mol (1686.6446 without restraints) Performing minimization step: 4528. Total energy = 1687.5212 kcal/mol (1685.7670 without restraints) Performing minimization step: 4529. Total energy = 1686.6438 kcal/mol (1684.8898 without restraints) Performing minimization step: 4530. Total energy = 1685.7670 kcal/mol (1684.0131 without restraints) Performing minimization step: 4531. Total energy = 1684.8905 kcal/mol (1683.1368 without restraints) Performing minimization step: 4532. Total energy = 1684.0146 kcal/mol (1682.2611 without restraints) Performing minimization step: 4533. Total energy = 1683.1391 kcal/mol (1681.3858 without restraints) Performing minimization step: 4534. Total energy = 1682.2641 kcal/mol (1680.5109 without restraints) Performing minimization step: 4535. Total energy = 1681.3896 kcal/mol (1679.6365 without restraints) Performing minimization step: 4536. Total energy = 1680.5155 kcal/mol (1678.7626 without restraints) Performing minimization step: 4537. Total energy = 1679.6419 kcal/mol (1677.8892 without restraints) Performing minimization step: 4538. Total energy = 1678.7687 kcal/mol (1677.0162 without restraints) Performing minimization step: 4539. Total energy = 1677.8961 kcal/mol (1676.1437 without restraints) Performing minimization step: 4540. Total energy = 1677.0239 kcal/mol (1675.2717 without restraints) Performing minimization step: 4541. Total energy = 1676.1521 kcal/mol (1674.4001 without restraints) Performing minimization step: 4542. Total energy = 1675.2809 kcal/mol (1673.5291 without restraints) Performing minimization step: 4543. Total energy = 1674.4101 kcal/mol (1672.6584 without restraints) Performing minimization step: 4544. Total energy = 1673.5398 kcal/mol (1671.7883 without restraints) Performing minimization step: 4545. Total energy = 1672.6699 kcal/mol (1670.9186 without restraints) Performing minimization step: 4546. Total energy = 1671.8006 kcal/mol (1670.0494 without restraints) Performing minimization step: 4547. Total energy = 1670.9317 kcal/mol (1669.1807 without restraints) Performing minimization step: 4548. Total energy = 1670.0633 kcal/mol (1668.3125 without restraints) Performing minimization step: 4549. Total energy = 1669.1954 kcal/mol (1667.4447 without restraints) Performing minimization step: 4550. Total energy = 1668.3279 kcal/mol (1666.5774 without restraints) Performing minimization step: 4551. Total energy = 1667.4608 kcal/mol (1665.7105 without restraints) Performing minimization step: 4552. Total energy = 1666.5942 kcal/mol (1664.8441 without restraints) Performing minimization step: 4553. Total energy = 1665.7283 kcal/mol (1663.9784 without restraints) Performing minimization step: 4554. Total energy = 1664.8627 kcal/mol (1663.1130 without restraints) Performing minimization step: 4555. Total energy = 1663.9976 kcal/mol (1662.2480 without restraints) Performing minimization step: 4556. Total energy = 1663.1329 kcal/mol (1661.3835 without restraints) Performing minimization step: 4557. Total energy = 1662.2687 kcal/mol (1660.5195 without restraints) Performing minimization step: 4558. Total energy = 1661.4050 kcal/mol (1659.6559 without restraints) Performing minimization step: 4559. Total energy = 1660.5417 kcal/mol (1658.7929 without restraints) Performing minimization step: 4560. Total energy = 1659.6790 kcal/mol (1657.9303 without restraints) Performing minimization step: 4561. Total energy = 1658.8167 kcal/mol (1657.0681 without restraints) Performing minimization step: 4562. Total energy = 1657.9549 kcal/mol (1656.2065 without restraints) Performing minimization step: 4563. Total energy = 1657.0935 kcal/mol (1655.3453 without restraints) Performing minimization step: 4564. Total energy = 1656.2327 kcal/mol (1654.4849 without restraints) Performing minimization step: 4565. Total energy = 1655.3724 kcal/mol (1653.6246 without restraints) Performing minimization step: 4566. Total energy = 1654.5125 kcal/mol (1652.7649 without restraints) Performing minimization step: 4567. Total energy = 1653.6530 kcal/mol (1651.9056 without restraints) Performing minimization step: 4568. Total energy = 1652.7940 kcal/mol (1651.0467 without restraints) Performing minimization step: 4569. Total energy = 1651.9355 kcal/mol (1650.1884 without restraints) Performing minimization step: 4570. Total energy = 1651.0775 kcal/mol (1649.3305 without restraints) Performing minimization step: 4571. Total energy = 1650.2199 kcal/mol (1648.4731 without restraints) Performing minimization step: 4572. Total energy = 1649.3632 kcal/mol (1647.6166 without restraints) Performing minimization step: 4573. Total energy = 1648.5066 kcal/mol (1646.7602 without restraints) Performing minimization step: 4574. Total energy = 1647.6505 kcal/mol (1645.9043 without restraints) Performing minimization step: 4575. Total energy = 1646.7948 kcal/mol (1645.0488 without restraints) Performing minimization step: 4576. Total energy = 1645.9396 kcal/mol (1644.1937 without restraints) Performing minimization step: 4577. Total energy = 1645.0849 kcal/mol (1643.3392 without restraints) Performing minimization step: 4578. Total energy = 1644.2307 kcal/mol (1642.4852 without restraints) Performing minimization step: 4579. Total energy = 1643.3769 kcal/mol (1641.6316 without restraints) Performing minimization step: 4580. Total energy = 1642.5236 kcal/mol (1640.7785 without restraints) Performing minimization step: 4581. Total energy = 1641.6708 kcal/mol (1639.9259 without restraints) Performing minimization step: 4582. Total energy = 1640.8184 kcal/mol (1639.0737 without restraints) Performing minimization step: 4583. Total energy = 1639.9666 kcal/mol (1638.2220 without restraints) Performing minimization step: 4584. Total energy = 1639.1152 kcal/mol (1637.3708 without restraints) Performing minimization step: 4585. Total energy = 1638.2643 kcal/mol (1636.5201 without restraints) Performing minimization step: 4586. Total energy = 1637.4138 kcal/mol (1635.6698 without restraints) Performing minimization step: 4587. Total energy = 1636.5639 kcal/mol (1634.8201 without restraints) Performing minimization step: 4588. Total energy = 1635.7144 kcal/mol (1633.9708 without restraints) Performing minimization step: 4589. Total energy = 1634.8654 kcal/mol (1633.1219 without restraints) Performing minimization step: 4590. Total energy = 1634.0169 kcal/mol (1632.2736 without restraints) Performing minimization step: 4591. Total energy = 1633.1688 kcal/mol (1631.4257 without restraints) Performing minimization step: 4592. Total energy = 1632.3212 kcal/mol (1630.5783 without restraints) Performing minimization step: 4593. Total energy = 1631.4742 kcal/mol (1629.7315 without restraints) Performing minimization step: 4594. Total energy = 1630.6275 kcal/mol (1628.8850 without restraints) Performing minimization step: 4595. Total energy = 1629.7816 kcal/mol (1628.0393 without restraints) Performing minimization step: 4596. Total energy = 1628.9360 kcal/mol (1627.1938 without restraints) Performing minimization step: 4597. Total energy = 1628.0908 kcal/mol (1626.3488 without restraints) Performing minimization step: 4598. Total energy = 1627.2461 kcal/mol (1625.5043 without restraints) Performing minimization step: 4599. Total energy = 1626.4019 kcal/mol (1624.6603 without restraints) Performing minimization step: 4600. Total energy = 1625.5581 kcal/mol (1623.8167 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 4601. Total energy = 1624.7149 kcal/mol (1622.9737 without restraints) Performing minimization step: 4602. Total energy = 1623.8721 kcal/mol (1622.1311 without restraints) Performing minimization step: 4603. Total energy = 1623.0300 kcal/mol (1621.2892 without restraints) Performing minimization step: 4604. Total energy = 1622.1882 kcal/mol (1620.4475 without restraints) Performing minimization step: 4605. Total energy = 1621.3468 kcal/mol (1619.6064 without restraints) Performing minimization step: 4606. Total energy = 1620.5059 kcal/mol (1618.7657 without restraints) Performing minimization step: 4607. Total energy = 1619.6656 kcal/mol (1617.9255 without restraints) Performing minimization step: 4608. Total energy = 1618.8257 kcal/mol (1617.0858 without restraints) Performing minimization step: 4609. Total energy = 1617.9862 kcal/mol (1616.2466 without restraints) Performing minimization step: 4610. Total energy = 1617.1473 kcal/mol (1615.4078 without restraints) Performing minimization step: 4611. Total energy = 1616.3088 kcal/mol (1614.5695 without restraints) Performing minimization step: 4612. Total energy = 1615.4709 kcal/mol (1613.7318 without restraints) Performing minimization step: 4613. Total energy = 1614.6334 kcal/mol (1612.8945 without restraints) Performing minimization step: 4614. Total energy = 1613.7963 kcal/mol (1612.0577 without restraints) Performing minimization step: 4615. Total energy = 1612.9598 kcal/mol (1611.2213 without restraints) Performing minimization step: 4616. Total energy = 1612.1237 kcal/mol (1610.3854 without restraints) Performing minimization step: 4617. Total energy = 1611.2884 kcal/mol (1609.5503 without restraints) Performing minimization step: 4618. Total energy = 1610.4533 kcal/mol (1608.7154 without restraints) Performing minimization step: 4619. Total energy = 1609.6187 kcal/mol (1607.8810 without restraints) Performing minimization step: 4620. Total energy = 1608.7846 kcal/mol (1607.0471 without restraints) Performing minimization step: 4621. Total energy = 1607.9509 kcal/mol (1606.2136 without restraints) Performing minimization step: 4622. Total energy = 1607.1178 kcal/mol (1605.3807 without restraints) Performing minimization step: 4623. Total energy = 1606.2851 kcal/mol (1604.5482 without restraints) Performing minimization step: 4624. Total energy = 1605.4529 kcal/mol (1603.7162 without restraints) Performing minimization step: 4625. Total energy = 1604.6212 kcal/mol (1602.8846 without restraints) Performing minimization step: 4626. Total energy = 1603.7899 kcal/mol (1602.0536 without restraints) Performing minimization step: 4627. Total energy = 1602.9592 kcal/mol (1601.2230 without restraints) Performing minimization step: 4628. Total energy = 1602.1289 kcal/mol (1600.3930 without restraints) Performing minimization step: 4629. Total energy = 1601.2991 kcal/mol (1599.5634 without restraints) Performing minimization step: 4630. Total energy = 1600.4698 kcal/mol (1598.7343 without restraints) Performing minimization step: 4631. Total energy = 1599.6410 kcal/mol (1597.9057 without restraints) Performing minimization step: 4632. Total energy = 1598.8127 kcal/mol (1597.0775 without restraints) Performing minimization step: 4633. Total energy = 1597.9848 kcal/mol (1596.2499 without restraints) Performing minimization step: 4634. Total energy = 1597.1574 kcal/mol (1595.4227 without restraints) Performing minimization step: 4635. Total energy = 1596.3305 kcal/mol (1594.5960 without restraints) Performing minimization step: 4636. Total energy = 1595.5041 kcal/mol (1593.7698 without restraints) Performing minimization step: 4637. Total energy = 1594.6782 kcal/mol (1592.9441 without restraints) Performing minimization step: 4638. Total energy = 1593.8528 kcal/mol (1592.1189 without restraints) Performing minimization step: 4639. Total energy = 1593.0279 kcal/mol (1591.2943 without restraints) Performing minimization step: 4640. Total energy = 1592.2035 kcal/mol (1590.4700 without restraints) Performing minimization step: 4641. Total energy = 1591.3796 kcal/mol (1589.6462 without restraints) Performing minimization step: 4642. Total energy = 1590.5561 kcal/mol (1588.8229 without restraints) Performing minimization step: 4643. Total energy = 1589.7330 kcal/mol (1588.0001 without restraints) Performing minimization step: 4644. Total energy = 1588.9107 kcal/mol (1587.1780 without restraints) Performing minimization step: 4645. Total energy = 1588.0887 kcal/mol (1586.3562 without restraints) Performing minimization step: 4646. Total energy = 1587.2671 kcal/mol (1585.5349 without restraints) Performing minimization step: 4647. Total energy = 1586.4462 kcal/mol (1584.7142 without restraints) Performing minimization step: 4648. Total energy = 1585.6257 kcal/mol (1583.8938 without restraints) Performing minimization step: 4649. Total energy = 1584.8056 kcal/mol (1583.0739 without restraints) Performing minimization step: 4650. Total energy = 1583.9860 kcal/mol (1582.2545 without restraints) Performing minimization step: 4651. Total energy = 1583.1668 kcal/mol (1581.4356 without restraints) Performing minimization step: 4652. Total energy = 1582.3482 kcal/mol (1580.6172 without restraints) Performing minimization step: 4653. Total energy = 1581.5305 kcal/mol (1579.7997 without restraints) Performing minimization step: 4654. Total energy = 1580.7130 kcal/mol (1578.9826 without restraints) Performing minimization step: 4655. Total energy = 1579.8961 kcal/mol (1578.1656 without restraints) Performing minimization step: 4656. Total energy = 1579.0794 kcal/mol (1577.3491 without restraints) Performing minimization step: 4657. Total energy = 1578.2632 kcal/mol (1576.5331 without restraints) Performing minimization step: 4658. Total energy = 1577.4474 kcal/mol (1575.7176 without restraints) Performing minimization step: 4659. Total energy = 1576.6322 kcal/mol (1574.9027 without restraints) Performing minimization step: 4660. Total energy = 1575.8175 kcal/mol (1574.0881 without restraints) Performing minimization step: 4661. Total energy = 1575.0032 kcal/mol (1573.2741 without restraints) Performing minimization step: 4662. Total energy = 1574.1895 kcal/mol (1572.4605 without restraints) Performing minimization step: 4663. Total energy = 1573.3762 kcal/mol (1571.6474 without restraints) Performing minimization step: 4664. Total energy = 1572.5634 kcal/mol (1570.8348 without restraints) Performing minimization step: 4665. Total energy = 1571.7511 kcal/mol (1570.0227 without restraints) Performing minimization step: 4666. Total energy = 1570.9392 kcal/mol (1569.2111 without restraints) Performing minimization step: 4667. Total energy = 1570.1277 kcal/mol (1568.3998 without restraints) Performing minimization step: 4668. Total energy = 1569.3168 kcal/mol (1567.5892 without restraints) Performing minimization step: 4669. Total energy = 1568.5065 kcal/mol (1566.7790 without restraints) Performing minimization step: 4670. Total energy = 1567.6966 kcal/mol (1565.9693 without restraints) Performing minimization step: 4671. Total energy = 1566.8872 kcal/mol (1565.1602 without restraints) Performing minimization step: 4672. Total energy = 1566.0783 kcal/mol (1564.3515 without restraints) Performing minimization step: 4673. Total energy = 1565.2699 kcal/mol (1563.5433 without restraints) Performing minimization step: 4674. Total energy = 1564.4623 kcal/mol (1562.7359 without restraints) Performing minimization step: 4675. Total energy = 1563.6548 kcal/mol (1561.9286 without restraints) Performing minimization step: 4676. Total energy = 1562.8479 kcal/mol (1561.1219 without restraints) Performing minimization step: 4677. Total energy = 1562.0414 kcal/mol (1560.3157 without restraints) Performing minimization step: 4678. Total energy = 1561.2355 kcal/mol (1559.5100 without restraints) Performing minimization step: 4679. Total energy = 1560.4300 kcal/mol (1558.7047 without restraints) Performing minimization step: 4680. Total energy = 1559.6253 kcal/mol (1557.9002 without restraints) Performing minimization step: 4681. Total energy = 1558.8208 kcal/mol (1557.0959 without restraints) Performing minimization step: 4682. Total energy = 1558.0168 kcal/mol (1556.2921 without restraints) Performing minimization step: 4683. Total energy = 1557.2133 kcal/mol (1555.4888 without restraints) Performing minimization step: 4684. Total energy = 1556.4103 kcal/mol (1554.6860 without restraints) Performing minimization step: 4685. Total energy = 1555.6077 kcal/mol (1553.8837 without restraints) Performing minimization step: 4686. Total energy = 1554.8057 kcal/mol (1553.0819 without restraints) Performing minimization step: 4687. Total energy = 1554.0042 kcal/mol (1552.2806 without restraints) Performing minimization step: 4688. Total energy = 1553.2033 kcal/mol (1551.4799 without restraints) Performing minimization step: 4689. Total energy = 1552.4027 kcal/mol (1550.6796 without restraints) Performing minimization step: 4690. Total energy = 1551.6027 kcal/mol (1549.8797 without restraints) Performing minimization step: 4691. Total energy = 1550.8031 kcal/mol (1549.0804 without restraints) Performing minimization step: 4692. Total energy = 1550.0039 kcal/mol (1548.2814 without restraints) Performing minimization step: 4693. Total energy = 1549.2053 kcal/mol (1547.4830 without restraints) Performing minimization step: 4694. Total energy = 1548.4072 kcal/mol (1546.6851 without restraints) Performing minimization step: 4695. Total energy = 1547.6095 kcal/mol (1545.8877 without restraints) Performing minimization step: 4696. Total energy = 1546.8124 kcal/mol (1545.0908 without restraints) Performing minimization step: 4697. Total energy = 1546.0160 kcal/mol (1544.2946 without restraints) Performing minimization step: 4698. Total energy = 1545.2198 kcal/mol (1543.4986 without restraints) Performing minimization step: 4699. Total energy = 1544.4241 kcal/mol (1542.7032 without restraints) Performing minimization step: 4700. Total energy = 1543.6290 kcal/mol (1541.9082 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 4701. Total energy = 1542.8343 kcal/mol (1541.1138 without restraints) Performing minimization step: 4702. Total energy = 1542.0401 kcal/mol (1540.3198 without restraints) Performing minimization step: 4703. Total energy = 1541.2464 kcal/mol (1539.5263 without restraints) Performing minimization step: 4704. Total energy = 1540.4532 kcal/mol (1538.7334 without restraints) Performing minimization step: 4705. Total energy = 1539.6604 kcal/mol (1537.9409 without restraints) Performing minimization step: 4706. Total energy = 1538.8682 kcal/mol (1537.1489 without restraints) Performing minimization step: 4707. Total energy = 1538.0765 kcal/mol (1536.3574 without restraints) Performing minimization step: 4708. Total energy = 1537.2852 kcal/mol (1535.5663 without restraints) Performing minimization step: 4709. Total energy = 1536.4945 kcal/mol (1534.7758 without restraints) Performing minimization step: 4710. Total energy = 1535.7042 kcal/mol (1533.9858 without restraints) Performing minimization step: 4711. Total energy = 1534.9145 kcal/mol (1533.1962 without restraints) Performing minimization step: 4712. Total energy = 1534.1252 kcal/mol (1532.4072 without restraints) Performing minimization step: 4713. Total energy = 1533.3364 kcal/mol (1531.6186 without restraints) Performing minimization step: 4714. Total energy = 1532.5483 kcal/mol (1530.8308 without restraints) Performing minimization step: 4715. Total energy = 1531.7605 kcal/mol (1530.0432 without restraints) Performing minimization step: 4716. Total energy = 1530.9732 kcal/mol (1529.2561 without restraints) Performing minimization step: 4717. Total energy = 1530.1864 kcal/mol (1528.4696 without restraints) Performing minimization step: 4718. Total energy = 1529.4001 kcal/mol (1527.6835 without restraints) Performing minimization step: 4719. Total energy = 1528.6143 kcal/mol (1526.8979 without restraints) Performing minimization step: 4720. Total energy = 1527.8289 kcal/mol (1526.1127 without restraints) Performing minimization step: 4721. Total energy = 1527.0440 kcal/mol (1525.3281 without restraints) Performing minimization step: 4722. Total energy = 1526.2597 kcal/mol (1524.5440 without restraints) Performing minimization step: 4723. Total energy = 1525.4759 kcal/mol (1523.7604 without restraints) Performing minimization step: 4724. Total energy = 1524.6925 kcal/mol (1522.9773 without restraints) Performing minimization step: 4725. Total energy = 1523.9096 kcal/mol (1522.1946 without restraints) Performing minimization step: 4726. Total energy = 1523.1273 kcal/mol (1521.4125 without restraints) Performing minimization step: 4727. Total energy = 1522.3454 kcal/mol (1520.6308 without restraints) Performing minimization step: 4728. Total energy = 1521.5640 kcal/mol (1519.8497 without restraints) Performing minimization step: 4729. Total energy = 1520.7831 kcal/mol (1519.0690 without restraints) Performing minimization step: 4730. Total energy = 1520.0027 kcal/mol (1518.2889 without restraints) Performing minimization step: 4731. Total energy = 1519.2228 kcal/mol (1517.5092 without restraints) Performing minimization step: 4732. Total energy = 1518.4436 kcal/mol (1516.7302 without restraints) Performing minimization step: 4733. Total energy = 1517.6647 kcal/mol (1515.9516 without restraints) Performing minimization step: 4734. Total energy = 1516.8863 kcal/mol (1515.1734 without restraints) Performing minimization step: 4735. Total energy = 1516.1083 kcal/mol (1514.3957 without restraints) Performing minimization step: 4736. Total energy = 1515.3310 kcal/mol (1513.6187 without restraints) Performing minimization step: 4737. Total energy = 1514.5544 kcal/mol (1512.8422 without restraints) Performing minimization step: 4738. Total energy = 1513.7780 kcal/mol (1512.0660 without restraints) Performing minimization step: 4739. Total energy = 1513.0020 kcal/mol (1511.2903 without restraints) Performing minimization step: 4740. Total energy = 1512.2266 kcal/mol (1510.5151 without restraints) Performing minimization step: 4741. Total energy = 1511.4516 kcal/mol (1509.7404 without restraints) Performing minimization step: 4742. Total energy = 1510.6771 kcal/mol (1508.9661 without restraints) Performing minimization step: 4743. Total energy = 1509.9032 kcal/mol (1508.1924 without restraints) Performing minimization step: 4744. Total energy = 1509.1297 kcal/mol (1507.4192 without restraints) Performing minimization step: 4745. Total energy = 1508.3568 kcal/mol (1506.6465 without restraints) Performing minimization step: 4746. Total energy = 1507.5843 kcal/mol (1505.8742 without restraints) Performing minimization step: 4747. Total energy = 1506.8123 kcal/mol (1505.1025 without restraints) Performing minimization step: 4748. Total energy = 1506.0408 kcal/mol (1504.3312 without restraints) Performing minimization step: 4749. Total energy = 1505.2698 kcal/mol (1503.5605 without restraints) Performing minimization step: 4750. Total energy = 1504.4992 kcal/mol (1502.7902 without restraints) Performing minimization step: 4751. Total energy = 1503.7292 kcal/mol (1502.0204 without restraints) Performing minimization step: 4752. Total energy = 1502.9597 kcal/mol (1501.2511 without restraints) Performing minimization step: 4753. Total energy = 1502.1907 kcal/mol (1500.4823 without restraints) Performing minimization step: 4754. Total energy = 1501.4222 kcal/mol (1499.7140 without restraints) Performing minimization step: 4755. Total energy = 1500.6541 kcal/mol (1498.9463 without restraints) Performing minimization step: 4756. Total energy = 1499.8866 kcal/mol (1498.1790 without restraints) Performing minimization step: 4757. Total energy = 1499.1196 kcal/mol (1497.4122 without restraints) Performing minimization step: 4758. Total energy = 1498.3530 kcal/mol (1496.6459 without restraints) Performing minimization step: 4759. Total energy = 1497.5870 kcal/mol (1495.8801 without restraints) Performing minimization step: 4760. Total energy = 1496.8214 kcal/mol (1495.1147 without restraints) Performing minimization step: 4761. Total energy = 1496.0563 kcal/mol (1494.3499 without restraints) Performing minimization step: 4762. Total energy = 1495.2918 kcal/mol (1493.5856 without restraints) Performing minimization step: 4763. Total energy = 1494.5277 kcal/mol (1492.8218 without restraints) Performing minimization step: 4764. Total energy = 1493.7641 kcal/mol (1492.0585 without restraints) Performing minimization step: 4765. Total energy = 1493.0011 kcal/mol (1491.2957 without restraints) Performing minimization step: 4766. Total energy = 1492.2385 kcal/mol (1490.5334 without restraints) Performing minimization step: 4767. Total energy = 1491.4765 kcal/mol (1489.7715 without restraints) Performing minimization step: 4768. Total energy = 1490.7149 kcal/mol (1489.0102 without restraints) Performing minimization step: 4769. Total energy = 1489.9538 kcal/mol (1488.2493 without restraints) Performing minimization step: 4770. Total energy = 1489.1932 kcal/mol (1487.4890 without restraints) Performing minimization step: 4771. Total energy = 1488.4330 kcal/mol (1486.7290 without restraints) Performing minimization step: 4772. Total energy = 1487.6733 kcal/mol (1485.9696 without restraints) Performing minimization step: 4773. Total energy = 1486.9142 kcal/mol (1485.2107 without restraints) Performing minimization step: 4774. Total energy = 1486.1556 kcal/mol (1484.4524 without restraints) Performing minimization step: 4775. Total energy = 1485.3977 kcal/mol (1483.6948 without restraints) Performing minimization step: 4776. Total energy = 1484.6401 kcal/mol (1482.9374 without restraints) Performing minimization step: 4777. Total energy = 1483.8830 kcal/mol (1482.1805 without restraints) Performing minimization step: 4778. Total energy = 1483.1264 kcal/mol (1481.4242 without restraints) Performing minimization step: 4779. Total energy = 1482.3702 kcal/mol (1480.6683 without restraints) Performing minimization step: 4780. Total energy = 1481.6146 kcal/mol (1479.9129 without restraints) Performing minimization step: 4781. Total energy = 1480.8595 kcal/mol (1479.1581 without restraints) Performing minimization step: 4782. Total energy = 1480.1049 kcal/mol (1478.4037 without restraints) Performing minimization step: 4783. Total energy = 1479.3509 kcal/mol (1477.6501 without restraints) Performing minimization step: 4784. Total energy = 1478.5974 kcal/mol (1476.8967 without restraints) Performing minimization step: 4785. Total energy = 1477.8442 kcal/mol (1476.1438 without restraints) Performing minimization step: 4786. Total energy = 1477.0916 kcal/mol (1475.3914 without restraints) Performing minimization step: 4787. Total energy = 1476.3394 kcal/mol (1474.6395 without restraints) Performing minimization step: 4788. Total energy = 1475.5878 kcal/mol (1473.8881 without restraints) Performing minimization step: 4789. Total energy = 1474.8370 kcal/mol (1473.1376 without restraints) Performing minimization step: 4790. Total energy = 1474.0863 kcal/mol (1472.3871 without restraints) Performing minimization step: 4791. Total energy = 1473.3361 kcal/mol (1471.6372 without restraints) Performing minimization step: 4792. Total energy = 1472.5865 kcal/mol (1470.8878 without restraints) Performing minimization step: 4793. Total energy = 1471.8373 kcal/mol (1470.1389 without restraints) Performing minimization step: 4794. Total energy = 1471.0887 kcal/mol (1469.3905 without restraints) Performing minimization step: 4795. Total energy = 1470.3405 kcal/mol (1468.6426 without restraints) Performing minimization step: 4796. Total energy = 1469.5928 kcal/mol (1467.8952 without restraints) Performing minimization step: 4797. Total energy = 1468.8456 kcal/mol (1467.1483 without restraints) Performing minimization step: 4798. Total energy = 1468.0989 kcal/mol (1466.4018 without restraints) Performing minimization step: 4799. Total energy = 1467.3527 kcal/mol (1465.6559 without restraints) Performing minimization step: 4800. Total energy = 1466.6070 kcal/mol (1464.9104 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 4801. Total energy = 1465.8618 kcal/mol (1464.1655 without restraints) Performing minimization step: 4802. Total energy = 1465.1171 kcal/mol (1463.4211 without restraints) Performing minimization step: 4803. Total energy = 1464.3730 kcal/mol (1462.6772 without restraints) Performing minimization step: 4804. Total energy = 1463.6293 kcal/mol (1461.9337 without restraints) Performing minimization step: 4805. Total energy = 1462.8863 kcal/mol (1461.1910 without restraints) Performing minimization step: 4806. Total energy = 1462.1436 kcal/mol (1460.4485 without restraints) Performing minimization step: 4807. Total energy = 1461.4014 kcal/mol (1459.7066 without restraints) Performing minimization step: 4808. Total energy = 1460.6597 kcal/mol (1458.9652 without restraints) Performing minimization step: 4809. Total energy = 1459.9185 kcal/mol (1458.2243 without restraints) Performing minimization step: 4810. Total energy = 1459.1778 kcal/mol (1457.4838 without restraints) Performing minimization step: 4811. Total energy = 1458.4378 kcal/mol (1456.7440 without restraints) Performing minimization step: 4812. Total energy = 1457.6980 kcal/mol (1456.0046 without restraints) Performing minimization step: 4813. Total energy = 1456.9588 kcal/mol (1455.2656 without restraints) Performing minimization step: 4814. Total energy = 1456.2201 kcal/mol (1454.5272 without restraints) Performing minimization step: 4815. Total energy = 1455.4819 kcal/mol (1453.7893 without restraints) Performing minimization step: 4816. Total energy = 1454.7442 kcal/mol (1453.0518 without restraints) Performing minimization step: 4817. Total energy = 1454.0070 kcal/mol (1452.3148 without restraints) Performing minimization step: 4818. Total energy = 1453.2702 kcal/mol (1451.5784 without restraints) Performing minimization step: 4819. Total energy = 1452.5340 kcal/mol (1450.8424 without restraints) Performing minimization step: 4820. Total energy = 1451.7982 kcal/mol (1450.1069 without restraints) Performing minimization step: 4821. Total energy = 1451.0630 kcal/mol (1449.3719 without restraints) Performing minimization step: 4822. Total energy = 1450.3282 kcal/mol (1448.6374 without restraints) Performing minimization step: 4823. Total energy = 1449.5940 kcal/mol (1447.9035 without restraints) Performing minimization step: 4824. Total energy = 1448.8602 kcal/mol (1447.1700 without restraints) Performing minimization step: 4825. Total energy = 1448.1270 kcal/mol (1446.4370 without restraints) Performing minimization step: 4826. Total energy = 1447.3942 kcal/mol (1445.7045 without restraints) Performing minimization step: 4827. Total energy = 1446.6620 kcal/mol (1444.9725 without restraints) Performing minimization step: 4828. Total energy = 1445.9302 kcal/mol (1444.2410 without restraints) Performing minimization step: 4829. Total energy = 1445.1990 kcal/mol (1443.5100 without restraints) Performing minimization step: 4830. Total energy = 1444.4683 kcal/mol (1442.7796 without restraints) Performing minimization step: 4831. Total energy = 1443.7380 kcal/mol (1442.0496 without restraints) Performing minimization step: 4832. Total energy = 1443.0082 kcal/mol (1441.3201 without restraints) Performing minimization step: 4833. Total energy = 1442.2789 kcal/mol (1440.5911 without restraints) Performing minimization step: 4834. Total energy = 1441.5502 kcal/mol (1439.8626 without restraints) Performing minimization step: 4835. Total energy = 1440.8219 kcal/mol (1439.1346 without restraints) Performing minimization step: 4836. Total energy = 1440.0943 kcal/mol (1438.4073 without restraints) Performing minimization step: 4837. Total energy = 1439.3670 kcal/mol (1437.6803 without restraints) Performing minimization step: 4838. Total energy = 1438.6406 kcal/mol (1436.9541 without restraints) Performing minimization step: 4839. Total energy = 1437.9143 kcal/mol (1436.2281 without restraints) Performing minimization step: 4840. Total energy = 1437.1885 kcal/mol (1435.5026 without restraints) Performing minimization step: 4841. Total energy = 1436.4632 kcal/mol (1434.7775 without restraints) Performing minimization step: 4842. Total energy = 1435.7384 kcal/mol (1434.0530 without restraints) Performing minimization step: 4843. Total energy = 1435.0141 kcal/mol (1433.3290 without restraints) Performing minimization step: 4844. Total energy = 1434.2903 kcal/mol (1432.6055 without restraints) Performing minimization step: 4845. Total energy = 1433.5672 kcal/mol (1431.8826 without restraints) Performing minimization step: 4846. Total energy = 1432.8444 kcal/mol (1431.1601 without restraints) Performing minimization step: 4847. Total energy = 1432.1221 kcal/mol (1430.4381 without restraints) Performing minimization step: 4848. Total energy = 1431.4003 kcal/mol (1429.7165 without restraints) Performing minimization step: 4849. Total energy = 1430.6790 kcal/mol (1428.9955 without restraints) Performing minimization step: 4850. Total energy = 1429.9585 kcal/mol (1428.2753 without restraints) Performing minimization step: 4851. Total energy = 1429.2382 kcal/mol (1427.5553 without restraints) Performing minimization step: 4852. Total energy = 1428.5184 kcal/mol (1426.8358 without restraints) Performing minimization step: 4853. Total energy = 1427.7991 kcal/mol (1426.1168 without restraints) Performing minimization step: 4854. Total energy = 1427.0803 kcal/mol (1425.3982 without restraints) Performing minimization step: 4855. Total energy = 1426.3620 kcal/mol (1424.6801 without restraints) Performing minimization step: 4856. Total energy = 1425.6442 kcal/mol (1423.9626 without restraints) Performing minimization step: 4857. Total energy = 1424.9268 kcal/mol (1423.2456 without restraints) Performing minimization step: 4858. Total energy = 1424.2100 kcal/mol (1422.5290 without restraints) Performing minimization step: 4859. Total energy = 1423.4936 kcal/mol (1421.8129 without restraints) Performing minimization step: 4860. Total energy = 1422.7780 kcal/mol (1421.0976 without restraints) Performing minimization step: 4861. Total energy = 1422.0627 kcal/mol (1420.3825 without restraints) Performing minimization step: 4862. Total energy = 1421.3478 kcal/mol (1419.6680 without restraints) Performing minimization step: 4863. Total energy = 1420.6335 kcal/mol (1418.9539 without restraints) Performing minimization step: 4864. Total energy = 1419.9196 kcal/mol (1418.2403 without restraints) Performing minimization step: 4865. Total energy = 1419.2062 kcal/mol (1417.5272 without restraints) Performing minimization step: 4866. Total energy = 1418.4934 kcal/mol (1416.8147 without restraints) Performing minimization step: 4867. Total energy = 1417.7811 kcal/mol (1416.1026 without restraints) Performing minimization step: 4868. Total energy = 1417.0692 kcal/mol (1415.3910 without restraints) Performing minimization step: 4869. Total energy = 1416.3578 kcal/mol (1414.6799 without restraints) Performing minimization step: 4870. Total energy = 1415.6469 kcal/mol (1413.9694 without restraints) Performing minimization step: 4871. Total energy = 1414.9366 kcal/mol (1413.2593 without restraints) Performing minimization step: 4872. Total energy = 1414.2266 kcal/mol (1412.5496 without restraints) Performing minimization step: 4873. Total energy = 1413.5173 kcal/mol (1411.8405 without restraints) Performing minimization step: 4874. Total energy = 1412.8084 kcal/mol (1411.1320 without restraints) Performing minimization step: 4875. Total energy = 1412.1000 kcal/mol (1410.4239 without restraints) Performing minimization step: 4876. Total energy = 1411.3921 kcal/mol (1409.7162 without restraints) Performing minimization step: 4877. Total energy = 1410.6847 kcal/mol (1409.0091 without restraints) Performing minimization step: 4878. Total energy = 1409.9778 kcal/mol (1408.3025 without restraints) Performing minimization step: 4879. Total energy = 1409.2714 kcal/mol (1407.5964 without restraints) Performing minimization step: 4880. Total energy = 1408.5655 kcal/mol (1406.8907 without restraints) Performing minimization step: 4881. Total energy = 1407.8601 kcal/mol (1406.1856 without restraints) Performing minimization step: 4882. Total energy = 1407.1554 kcal/mol (1405.4812 without restraints) Performing minimization step: 4883. Total energy = 1406.4507 kcal/mol (1404.7768 without restraints) Performing minimization step: 4884. Total energy = 1405.7470 kcal/mol (1404.0734 without restraints) Performing minimization step: 4885. Total energy = 1405.0436 kcal/mol (1403.3703 without restraints) Performing minimization step: 4886. Total energy = 1404.3407 kcal/mol (1402.6677 without restraints) Performing minimization step: 4887. Total energy = 1403.6382 kcal/mol (1401.9655 without restraints) Performing minimization step: 4888. Total energy = 1402.9363 kcal/mol (1401.2639 without restraints) Performing minimization step: 4889. Total energy = 1402.2349 kcal/mol (1400.5627 without restraints) Performing minimization step: 4890. Total energy = 1401.5339 kcal/mol (1399.8621 without restraints) Performing minimization step: 4891. Total energy = 1400.8336 kcal/mol (1399.1621 without restraints) Performing minimization step: 4892. Total energy = 1400.1337 kcal/mol (1398.4625 without restraints) Performing minimization step: 4893. Total energy = 1399.4343 kcal/mol (1397.7633 without restraints) Performing minimization step: 4894. Total energy = 1398.7353 kcal/mol (1397.0646 without restraints) Performing minimization step: 4895. Total energy = 1398.0373 kcal/mol (1396.3669 without restraints) Performing minimization step: 4896. Total energy = 1397.3393 kcal/mol (1395.6692 without restraints) Performing minimization step: 4897. Total energy = 1396.6419 kcal/mol (1394.9721 without restraints) Performing minimization step: 4898. Total energy = 1395.9449 kcal/mol (1394.2754 without restraints) Performing minimization step: 4899. Total energy = 1395.2484 kcal/mol (1393.5792 without restraints) Performing minimization step: 4900. Total energy = 1394.5525 kcal/mol (1392.8836 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. Performing minimization step: 4901. Total energy = 1393.8570 kcal/mol (1392.1884 without restraints) Performing minimization step: 4902. Total energy = 1393.1620 kcal/mol (1391.4937 without restraints) Performing minimization step: 4903. Total energy = 1392.4675 kcal/mol (1390.7995 without restraints) Performing minimization step: 4904. Total energy = 1391.7735 kcal/mol (1390.1058 without restraints) Performing minimization step: 4905. Total energy = 1391.0802 kcal/mol (1389.4128 without restraints) Performing minimization step: 4906. Total energy = 1390.3872 kcal/mol (1388.7201 without restraints) Performing minimization step: 4907. Total energy = 1389.6947 kcal/mol (1388.0279 without restraints) Performing minimization step: 4908. Total energy = 1389.0027 kcal/mol (1387.3362 without restraints) Performing minimization step: 4909. Total energy = 1388.3112 kcal/mol (1386.6449 without restraints) Performing minimization step: 4910. Total energy = 1387.6201 kcal/mol (1385.9542 without restraints) Performing minimization step: 4911. Total energy = 1386.9296 kcal/mol (1385.2640 without restraints) Performing minimization step: 4912. Total energy = 1386.2396 kcal/mol (1384.5743 without restraints) Performing minimization step: 4913. Total energy = 1385.5503 kcal/mol (1383.8852 without restraints) Performing minimization step: 4914. Total energy = 1384.8613 kcal/mol (1383.1965 without restraints) Performing minimization step: 4915. Total energy = 1384.1727 kcal/mol (1382.5082 without restraints) Performing minimization step: 4916. Total energy = 1383.4846 kcal/mol (1381.8205 without restraints) Performing minimization step: 4917. Total energy = 1382.7973 kcal/mol (1381.1334 without restraints) Performing minimization step: 4918. Total energy = 1382.1102 kcal/mol (1380.4467 without restraints) Performing minimization step: 4919. Total energy = 1381.4236 kcal/mol (1379.7604 without restraints) Performing minimization step: 4920. Total energy = 1380.7375 kcal/mol (1379.0746 without restraints) Performing minimization step: 4921. Total energy = 1380.0520 kcal/mol (1378.3893 without restraints) Performing minimization step: 4922. Total energy = 1379.3669 kcal/mol (1377.7045 without restraints) Performing minimization step: 4923. Total energy = 1378.6823 kcal/mol (1377.0202 without restraints) Performing minimization step: 4924. Total energy = 1377.9982 kcal/mol (1376.3365 without restraints) Performing minimization step: 4925. Total energy = 1377.3146 kcal/mol (1375.6532 without restraints) Performing minimization step: 4926. Total energy = 1376.6315 kcal/mol (1374.9704 without restraints) Performing minimization step: 4927. Total energy = 1375.9489 kcal/mol (1374.2880 without restraints) Performing minimization step: 4928. Total energy = 1375.2667 kcal/mol (1373.6062 without restraints) Performing minimization step: 4929. Total energy = 1374.5851 kcal/mol (1372.9249 without restraints) Performing minimization step: 4930. Total energy = 1373.9040 kcal/mol (1372.2441 without restraints) Performing minimization step: 4931. Total energy = 1373.2233 kcal/mol (1371.5637 without restraints) Performing minimization step: 4932. Total energy = 1372.5434 kcal/mol (1370.8841 without restraints) Performing minimization step: 4933. Total energy = 1371.8638 kcal/mol (1370.2048 without restraints) Performing minimization step: 4934. Total energy = 1371.1846 kcal/mol (1369.5259 without restraints) Performing minimization step: 4935. Total energy = 1370.5061 kcal/mol (1368.8478 without restraints) Performing minimization step: 4936. Total energy = 1369.8279 kcal/mol (1368.1698 without restraints) Performing minimization step: 4937. Total energy = 1369.1502 kcal/mol (1367.4925 without restraints) Performing minimization step: 4938. Total energy = 1368.4730 kcal/mol (1366.8156 without restraints) Performing minimization step: 4939. Total energy = 1367.7963 kcal/mol (1366.1392 without restraints) Performing minimization step: 4940. Total energy = 1367.1203 kcal/mol (1365.4635 without restraints) Performing minimization step: 4941. Total energy = 1366.4450 kcal/mol (1364.7885 without restraints) Performing minimization step: 4942. Total energy = 1365.7697 kcal/mol (1364.1135 without restraints) Performing minimization step: 4943. Total energy = 1365.0951 kcal/mol (1363.4393 without restraints) Performing minimization step: 4944. Total energy = 1364.4211 kcal/mol (1362.7656 without restraints) Performing minimization step: 4945. Total energy = 1363.7475 kcal/mol (1362.0922 without restraints) Performing minimization step: 4946. Total energy = 1363.0742 kcal/mol (1361.4193 without restraints) Performing minimization step: 4947. Total energy = 1362.4017 kcal/mol (1360.7470 without restraints) Performing minimization step: 4948. Total energy = 1361.7294 kcal/mol (1360.0751 without restraints) Performing minimization step: 4949. Total energy = 1361.0577 kcal/mol (1359.4036 without restraints) Performing minimization step: 4950. Total energy = 1360.3864 kcal/mol (1358.7327 without restraints) Performing minimization step: 4951. Total energy = 1359.7156 kcal/mol (1358.0622 without restraints) Performing minimization step: 4952. Total energy = 1359.0453 kcal/mol (1357.3922 without restraints) Performing minimization step: 4953. Total energy = 1358.3755 kcal/mol (1356.7227 without restraints) Performing minimization step: 4954. Total energy = 1357.7062 kcal/mol (1356.0537 without restraints) Performing minimization step: 4955. Total energy = 1357.0373 kcal/mol (1355.3852 without restraints) Performing minimization step: 4956. Total energy = 1356.3690 kcal/mol (1354.7172 without restraints) Performing minimization step: 4957. Total energy = 1355.7014 kcal/mol (1354.0501 without restraints) Performing minimization step: 4958. Total energy = 1355.0343 kcal/mol (1353.3831 without restraints) Performing minimization step: 4959. Total energy = 1354.3674 kcal/mol (1352.7166 without restraints) Performing minimization step: 4960. Total energy = 1353.7011 kcal/mol (1352.0505 without restraints) Performing minimization step: 4961. Total energy = 1353.0352 kcal/mol (1351.3849 without restraints) Performing minimization step: 4962. Total energy = 1352.3698 kcal/mol (1350.7199 without restraints) Performing minimization step: 4963. Total energy = 1351.7049 kcal/mol (1350.0553 without restraints) Performing minimization step: 4964. Total energy = 1351.0405 kcal/mol (1349.3912 without restraints) Performing minimization step: 4965. Total energy = 1350.3766 kcal/mol (1348.7276 without restraints) Performing minimization step: 4966. Total energy = 1349.7132 kcal/mol (1348.0645 without restraints) Performing minimization step: 4967. Total energy = 1349.0502 kcal/mol (1347.4019 without restraints) Performing minimization step: 4968. Total energy = 1348.3878 kcal/mol (1346.7398 without restraints) Performing minimization step: 4969. Total energy = 1347.7260 kcal/mol (1346.0784 without restraints) Performing minimization step: 4970. Total energy = 1347.0646 kcal/mol (1345.4172 without restraints) Performing minimization step: 4971. Total energy = 1346.4036 kcal/mol (1344.7566 without restraints) Performing minimization step: 4972. Total energy = 1345.7431 kcal/mol (1344.0964 without restraints) Performing minimization step: 4973. Total energy = 1345.0831 kcal/mol (1343.4367 without restraints) Performing minimization step: 4974. Total energy = 1344.4236 kcal/mol (1342.7776 without restraints) Performing minimization step: 4975. Total energy = 1343.7646 kcal/mol (1342.1189 without restraints) Performing minimization step: 4976. Total energy = 1343.1061 kcal/mol (1341.4607 without restraints) Performing minimization step: 4977. Total energy = 1342.4481 kcal/mol (1340.8030 without restraints) Performing minimization step: 4978. Total energy = 1341.7905 kcal/mol (1340.1457 without restraints) Performing minimization step: 4979. Total energy = 1341.1335 kcal/mol (1339.4890 without restraints) Performing minimization step: 4980. Total energy = 1340.4769 kcal/mol (1338.8328 without restraints) Performing minimization step: 4981. Total energy = 1339.8208 kcal/mol (1338.1770 without restraints) Performing minimization step: 4982. Total energy = 1339.1655 kcal/mol (1337.5220 without restraints) Performing minimization step: 4983. Total energy = 1338.5104 kcal/mol (1336.8672 without restraints) Performing minimization step: 4984. Total energy = 1337.8558 kcal/mol (1336.2129 without restraints) Performing minimization step: 4985. Total energy = 1337.2017 kcal/mol (1335.5591 without restraints) Performing minimization step: 4986. Total energy = 1336.5480 kcal/mol (1334.9058 without restraints) Performing minimization step: 4987. Total energy = 1335.8949 kcal/mol (1334.2530 without restraints) Performing minimization step: 4988. Total energy = 1335.2422 kcal/mol (1333.6007 without restraints) Performing minimization step: 4989. Total energy = 1334.5900 kcal/mol (1332.9488 without restraints) Performing minimization step: 4990. Total energy = 1333.9384 kcal/mol (1332.2975 without restraints) Performing minimization step: 4991. Total energy = 1333.2874 kcal/mol (1331.6468 without restraints) Performing minimization step: 4992. Total energy = 1332.6366 kcal/mol (1330.9964 without restraints) Performing minimization step: 4993. Total energy = 1331.9864 kcal/mol (1330.3465 without restraints) Performing minimization step: 4994. Total energy = 1331.3367 kcal/mol (1329.6971 without restraints) Performing minimization step: 4995. Total energy = 1330.6874 kcal/mol (1329.0482 without restraints) Performing minimization step: 4996. Total energy = 1330.0393 kcal/mol (1328.4004 without restraints) Performing minimization step: 4997. Total energy = 1329.3910 kcal/mol (1327.7525 without restraints) Performing minimization step: 4998. Total energy = 1328.7433 kcal/mol (1327.1050 without restraints) Performing minimization step: 4999. Total energy = 1328.0960 kcal/mol (1326.4581 without restraints) Performing minimization step: 5000. Total energy = 1327.4493 kcal/mol (1325.8118 without restraints) Writing PDB file: /home/ubuntu/rna-tools/rna_tools/tools/webserver-engine/media/jobs/bbdb3597/tmp/5-prime-fragment_refx/5-prime-fragment_refx.pdb ...Done. /home/ubuntu/rna-tools//opt/qrnas/ Save to 5-prime-fragment_refx.pdb DONE!