# extra_A16_A60_UC_WS_cis.pdb # **************************************************************************** DSSR: Software for Defining the (Secondary) Structures of RNA by Xiang-Jun Lu (xiangjun@x3dna.org), beta-r08-on-20130323 The program is currently under active development. As always, we greatly appreciate your feedback! Please report all DSSR-related issues on the 3DNA Forum (http://forum.x3dna.org/), and I strive to promptly respond to any questions posted there. **************************************************************************** Date and time: Tue Jul 14 20:39:59 2026 File name: extra_A16_A60_UC_WS_cis.pdb no. of DNA/RNA chains: 1 [A=2] no. of nucleotides: 2 no. of waters: 0 no. of metals: 0 **************************************************************************** >chain-A #1 RNA* with 2 nts UC .. # extra_A20_A59_GU_SH_tran.pdb # **************************************************************************** DSSR: Software for Defining the (Secondary) Structures of RNA by Xiang-Jun Lu (xiangjun@x3dna.org), beta-r08-on-20130323 The program is currently under active development. As always, we greatly appreciate your feedback! Please report all DSSR-related issues on the 3DNA Forum (http://forum.x3dna.org/), and I strive to promptly respond to any questions posted there. **************************************************************************** Date and time: Tue Jul 14 20:39:59 2026 File name: extra_A20_A59_GU_SH_tran.pdb no. of DNA/RNA chains: 1 [A=2] no. of nucleotides: 2 no. of waters: 0 no. of metals: 0 **************************************************************************** >chain-A #1 RNA* with 2 nts GU .. # extra_A25_A45_CG_HH_tran.pdb # **************************************************************************** DSSR: Software for Defining the (Secondary) Structures of RNA by Xiang-Jun Lu (xiangjun@x3dna.org), beta-r08-on-20130323 The program is currently under active development. As always, we greatly appreciate your feedback! Please report all DSSR-related issues on the 3DNA Forum (http://forum.x3dna.org/), and I strive to promptly respond to any questions posted there. **************************************************************************** Date and time: Tue Jul 14 20:39:59 2026 File name: extra_A25_A45_CG_HH_tran.pdb no. of DNA/RNA chains: 1 [A=2] no. of nucleotides: 2 no. of waters: 0 no. of metals: 0 **************************************************************************** >chain-A #1 RNA* with 2 nts CG .. # extra_A31_A39_AU_SS_cis.pdb # **************************************************************************** DSSR: Software for Defining the (Secondary) Structures of RNA by Xiang-Jun Lu (xiangjun@x3dna.org), beta-r08-on-20130323 The program is currently under active development. As always, we greatly appreciate your feedback! Please report all DSSR-related issues on the 3DNA Forum (http://forum.x3dna.org/), and I strive to promptly respond to any questions posted there. **************************************************************************** Date and time: Tue Jul 14 20:39:59 2026 File name: extra_A31_A39_AU_SS_cis.pdb no. of DNA/RNA chains: 1 [A=2] no. of nucleotides: 2 no. of waters: 0 no. of metals: 0 **************************************************************************** List of 1 base pair(s) 1 1:A.A31 1:A.U39 [A+U] 00-n/a ... c... -156.7(anti) C3'-endo lambda=84.4; n/a(n/a) C3'-endo lambda=55.6 d(C1'-C1')=10.71 d(N1-N9)=8.61 d(C6-C8)=10.53 tor(N1-C1'-C1'-N9)=-8.9 H-bonds[1]: "N1*O2(carbonyl)[3.18]" bp_pars: [-0.67 -5.16 -0.18 -6.62 18.51 -176.50] **************************************************************************** >chain-A #1 RNA* with 2 nts AU .. # extra_A32_A38_CA_SW_cis.pdb # **************************************************************************** DSSR: Software for Defining the (Secondary) Structures of RNA by Xiang-Jun Lu (xiangjun@x3dna.org), beta-r08-on-20130323 The program is currently under active development. As always, we greatly appreciate your feedback! Please report all DSSR-related issues on the 3DNA Forum (http://forum.x3dna.org/), and I strive to promptly respond to any questions posted there. **************************************************************************** Date and time: Tue Jul 14 20:39:59 2026 File name: extra_A32_A38_CA_SW_cis.pdb no. of DNA/RNA chains: 1 [A=2] no. of nucleotides: 2 no. of waters: 0 no. of metals: 0 **************************************************************************** List of 1 base pair(s) 1 1:A.C32 1:A.A38 [C-A] 00-n/a c.. c.-. -149.9(anti) C3'-endo lambda=99.5; -169.4(anti) C3'-endo lambda=22.2 d(C1'-C1')=10.81 d(N1-N9)=9.74 d(C6-C8)=10.61 tor(N1-C1'-C1'-N9)=2.9 H-bonds[1]: "O2(carbonyl)-N6(amino)[3.01]" bp_pars: [6.79 -1.66 0.71 -5.43 9.64 16.62] **************************************************************************** >chain-A #1 RNA* with 2 nts CA .. # extra_A33_A36_UA_SH_cis.pdb # **************************************************************************** DSSR: Software for Defining the (Secondary) Structures of RNA by Xiang-Jun Lu (xiangjun@x3dna.org), beta-r08-on-20130323 The program is currently under active development. As always, we greatly appreciate your feedback! Please report all DSSR-related issues on the 3DNA Forum (http://forum.x3dna.org/), and I strive to promptly respond to any questions posted there. **************************************************************************** Date and time: Tue Jul 14 20:39:59 2026 File name: extra_A33_A36_UA_SH_cis.pdb no. of DNA/RNA chains: 1 [A=2] no. of nucleotides: 2 no. of waters: 0 no. of metals: 0 **************************************************************************** List of 1 base pair(s) 1 1:A.U33 1:A.A36 [U-A] 00-n/a ... t... -148.2(anti) C3'-endo lambda=94.1; -158.4(anti) C4'-exo lambda=39.2 d(C1'-C1')=6.74 d(N1-N9)=6.18 d(C6-C8)=6.17 tor(N1-C1'-C1'-N9)=-159.7 H-bonds[1]: "N3(imino)-OP2[2.80]" bp_pars: [6.01 -9.48 1.18 12.36 20.63 -53.95] **************************************************************************** >chain-A #1 RNA* with 2 nts UA .. # extra_A55_A57_UG_WH_tran.pdb # **************************************************************************** DSSR: Software for Defining the (Secondary) Structures of RNA by Xiang-Jun Lu (xiangjun@x3dna.org), beta-r08-on-20130323 The program is currently under active development. As always, we greatly appreciate your feedback! Please report all DSSR-related issues on the 3DNA Forum (http://forum.x3dna.org/), and I strive to promptly respond to any questions posted there. **************************************************************************** Date and time: Tue Jul 14 20:39:59 2026 File name: extra_A55_A57_UG_WH_tran.pdb no. of DNA/RNA chains: 1 [A=2] no. of nucleotides: 2 no. of waters: 0 no. of metals: 0 **************************************************************************** >chain-A #1 RNA* with 2 nts UG .. # extra_A58_A60_AC_SH_tran.pdb # **************************************************************************** DSSR: Software for Defining the (Secondary) Structures of RNA by Xiang-Jun Lu (xiangjun@x3dna.org), beta-r08-on-20130323 The program is currently under active development. As always, we greatly appreciate your feedback! Please report all DSSR-related issues on the 3DNA Forum (http://forum.x3dna.org/), and I strive to promptly respond to any questions posted there. **************************************************************************** Date and time: Tue Jul 14 20:39:59 2026 File name: extra_A58_A60_AC_SH_tran.pdb no. of DNA/RNA chains: 1 [A=2] no. of nucleotides: 2 no. of waters: 0 no. of metals: 0 **************************************************************************** >chain-A #1 RNA* with 2 nts AC .. # extra_A8_A21_UA_SS_cis.pdb # **************************************************************************** DSSR: Software for Defining the (Secondary) Structures of RNA by Xiang-Jun Lu (xiangjun@x3dna.org), beta-r08-on-20130323 The program is currently under active development. As always, we greatly appreciate your feedback! Please report all DSSR-related issues on the 3DNA Forum (http://forum.x3dna.org/), and I strive to promptly respond to any questions posted there. **************************************************************************** Date and time: Tue Jul 14 20:39:59 2026 File name: extra_A8_A21_UA_SS_cis.pdb no. of DNA/RNA chains: 1 [A=2] no. of nucleotides: 2 no. of waters: 0 no. of metals: 0 **************************************************************************** List of 1 base pair(s) 1 1:A.U8 1:A.A21 [U+A] 00-n/a ... t... -161.5(anti) C3'-endo lambda=111.1; -160.2(anti) C3'-endo lambda=50.1 d(C1'-C1')=8.76 d(N1-N9)=8.70 d(C6-C8)=10.78 tor(N1-C1'-C1'-N9)=158.2 H-bonds[1]: "O2'(hydroxyl)-N1[2.68]" bp_pars: [-1.22 -8.06 -0.19 -9.35 19.04 -117.98] **************************************************************************** >chain-A #1 RNA* with 2 nts UA .. # extra_A9_A11_AC_SH_cis.pdb # **************************************************************************** DSSR: Software for Defining the (Secondary) Structures of RNA by Xiang-Jun Lu (xiangjun@x3dna.org), beta-r08-on-20130323 The program is currently under active development. As always, we greatly appreciate your feedback! Please report all DSSR-related issues on the 3DNA Forum (http://forum.x3dna.org/), and I strive to promptly respond to any questions posted there. **************************************************************************** Date and time: Tue Jul 14 20:39:59 2026 File name: extra_A9_A11_AC_SH_cis.pdb no. of DNA/RNA chains: 1 [A=2] no. of nucleotides: 2 no. of waters: 0 no. of metals: 0 **************************************************************************** >chain-A #1 RNA* with 2 nts AC .. DONE!