1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Mauffret, O. El Amri, C. Santamaria, F. Tevanian, G. Rayner, B. Fermandjian, S. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 C9 H14 N3 O7 P 307.197 2'-DEOXY-L-RIBO-FURANOSYL CYTOSINE-5'-MONOPHOSPHATE L-DNA linking C10 H14 N5 O7 P 347.221 2'-DEOXY-L-RIBO-FURANOSYL GUANINE-5'-MONOPHOSPHATE L-DNA linking C10 H16 N3 O7 P 321.224 n 5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O7 P 347.221 y 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE DNA linking UK Nucleic Acids Res. NARHAD 0389 0305-1048 28 4403 4409 10.1093/nar/28.22.4403 11071926 A two B-Z junction containing DNA resolves into an all right-handed double-helix. 2000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 3103.089 5'-D(*(5CM)P*GP*(5CM)P*GP*(0DC)P*(0DG)P*(5CM)P*GP*(5CM)P*G)-3' 2 syn polymer no yes (5CM)(DG)(5CM)(DG)(0DC)(0DG)(5CM)(DG)(5CM)(DG) CGCGCGCGCG A,B polydeoxyribonucleotide n n n n n n n n n n -27.074 1 19 A 1 B 20 -3.799 A_5CM1:DG20_B 1 5.421 0.061 0.499 -0.079 -2.958 1 19 A 2 B 19 -1.153 A_DG2:5CM19_B 2 2.045 -0.205 0.166 -0.222 -15.319 1 19 A 3 B 18 -8.418 A_5CM3:DG18_B 3 -11.220 -0.303 1.496 -0.505 -5.995 1 19 A 4 B 17 1.263 A_DG4:5CM17_B 4 13.802 -0.278 0.290 -0.297 17.754 1 19 A 5 B 16 -1.836 A_0DC5:0DG16_B 5 -6.076 0.197 -0.405 -0.180 -5.688 1 19 A 6 B 15 -2.878 A_0DG6:0DC15_B 6 -6.405 -0.165 0.485 -0.277 -16.653 1 19 A 7 B 14 -1.967 A_5CM7:DG14_B 7 0.885 0.238 0.506 -0.224 2.873 1 19 A 8 B 13 -3.629 A_DG8:5CM13_B 8 -4.259 0.040 0.935 -0.318 10.197 1 19 A 9 B 12 -0.923 A_5CM9:DG12_B 9 10.384 0.186 -0.344 -0.217 27.016 1 19 A 10 B 11 -3.407 A_DG10:5CM11_B 10 21.613 -0.187 0.137 -0.140 2.733 33.398 A A 1 2 5.267 B B 20 19 2.707 3.023 0.328 0.360 AA_5CM1DG2:5CM19DG20_BB 1 0.571 -0.995 33.260 0.210 -0.492 4.413 36.195 A A 2 3 10.087 B B 19 18 4.277 6.210 -0.904 0.641 AA_DG25CM3:DG185CM19_BB 2 -6.023 9.783 35.179 -0.146 0.313 3.471 36.557 A A 3 4 -5.664 B B 18 17 3.445 -3.540 1.284 0.866 AA_5CM3DG4:5CM17DG18_BB 3 4.237 -6.779 36.152 1.899 -1.426 2.928 35.293 A A 4 5 12.209 B B 17 16 2.833 7.326 0.602 0.480 AA_DG40DC5:0DG165CM17_BB 4 5.164 -8.605 34.171 -0.179 -0.309 3.678 39.061 A A 6 7 27.149 B B 15 14 3.972 17.549 -0.812 0.234 AA_0DG65CM7:DG140DC15_BB 5 -0.006 0.010 35.035 -2.270 1.213 2.796 37.857 A A 7 8 -13.853 B B 14 13 2.960 -8.898 -0.914 0.675 AA_5CM7DG8:5CM13DG14_BB 6 -3.287 5.117 36.692 2.062 1.032 3.657 33.814 A A 8 9 9.972 B B 13 12 3.531 5.756 0.788 0.618 AA_DG85CM9:DG125CM13_BB 7 4.581 -7.936 33.027 0.028 -0.532 2.767 32.942 A A 9 10 16.522 B B 12 11 2.858 9.208 -0.956 -0.359 AA_5CM9DG10:5CM11DG12_BB 8 -5.455 9.788 31.201 -2.021 0.864 repository Initial release Version format compliance Version format compliance Structure summary 1 0 2000-10-11 1 1 2007-10-16 1 2 2011-07-13 1 3 2017-02-01 RCSB Y RCSB 2000-09-19 REL REL This structure was determined using standard 2D homonuclear techniques lower energy structures, restraints violations, and the average structure 50 11 2D NOESY P-COSY TOCSY 0.1 7 293 K the structures are based on a total of 504 restraints, 390 are NOE-derived distance constraints, 104 dihedral angle restraints,36 distance restraints from hydrogen bonds. simulated annealing, torsion angle dynamics 10 2 mM DNA; 0.1 M phosphate Buffer MSI data analysis FELIX BRUNGER et al., 1998 refinement CNS 500 Bruker AMX 5CM 1 n 1 5CM 1 A DG 2 n 2 DG 2 A 5CM 3 n 3 5CM 3 A DG 4 n 4 DG 4 A 0DC 5 n 5 0DC 5 A 0DG 6 n 6 0DG 6 A 5CM 7 n 7 5CM 7 A DG 8 n 8 DG 8 A 5CM 9 n 9 5CM 9 A DG 10 n 10 DG 10 A 5CM 11 n 1 5CM 11 B DG 12 n 2 DG 12 B 5CM 13 n 3 5CM 13 B DG 14 n 4 DG 14 B 0DC 15 n 5 0DC 15 B 0DG 16 n 6 0DG 16 B 5CM 17 n 7 5CM 17 B DG 18 n 8 DG 18 B 5CM 19 n 9 5CM 19 B DG 20 n 10 DG 20 B author_defined_assembly 2 dimeric A 5CM 1 A 5CM 1 DC A 5CM 3 A 5CM 3 DC A 5CM 7 A 5CM 7 DC A 5CM 9 A 5CM 9 DC B 5CM 11 B 5CM 1 DC B 5CM 13 B 5CM 3 DC B 5CM 17 B 5CM 7 DC B 5CM 19 B 5CM 9 DC 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 5'-D(*CP*GP*CP*GP*(0DC)P*(0DG)P*CP*GP*CP*G)-3' A TWO B-Z JUNCTION CONTAINING DNA RESOLVES INTO AN ALL RIGHT HANDED DOUBLE HELIX 1 N N 1 N N covale 1.608 A DG 4 A O3' DG 4 1_555 A 0DC 5 A P 0DC 5 1_555 covale 1.609 A 0DC 5 A O3' 0DC 5 1_555 A 0DG 6 A P 0DG 6 1_555 covale 1.610 B DG 14 B O3' DG 4 1_555 B 0DC 15 B P 0DC 5 1_555 covale 1.608 B 0DC 15 B O3' 0DC 5 1_555 B 0DG 16 B P 0DG 6 1_555 covale 1.608 A 5CM 1 A O3' 5CM 1 1_555 A DG 2 A P DG 2 1_555 covale 1.609 A DG 2 A O3' DG 2 1_555 A 5CM 3 A P 5CM 3 1_555 covale 1.609 A 5CM 3 A O3' 5CM 3 1_555 A DG 4 A P DG 4 1_555 covale 1.609 A 0DG 6 A O3' 0DG 6 1_555 A 5CM 7 A P 5CM 7 1_555 covale 1.609 A 5CM 7 A O3' 5CM 7 1_555 A DG 8 A P DG 8 1_555 covale 1.609 A DG 8 A O3' DG 8 1_555 A 5CM 9 A P 5CM 9 1_555 covale 1.609 A 5CM 9 A O3' 5CM 9 1_555 A DG 10 A P DG 10 1_555 covale 1.608 B 5CM 11 B O3' 5CM 1 1_555 B DG 12 B P DG 2 1_555 covale 1.609 B DG 12 B O3' DG 2 1_555 B 5CM 13 B P 5CM 3 1_555 covale 1.609 B 5CM 13 B O3' 5CM 3 1_555 B DG 14 B P DG 4 1_555 covale 1.608 B 0DG 16 B O3' 0DG 6 1_555 B 5CM 17 B P 5CM 7 1_555 covale 1.608 B 5CM 17 B O3' 5CM 7 1_555 B DG 18 B P DG 8 1_555 covale 1.608 B DG 18 B O3' DG 8 1_555 B 5CM 19 B P 5CM 9 1_555 covale 1.609 B 5CM 19 B O3' 5CM 9 1_555 B DG 20 B P DG 10 1_555 hydrog WATSON-CRICK A 5CM 1 A N3 5CM 1 1_555 B DG 20 B N1 DG 10 1_555 hydrog WATSON-CRICK A 5CM 1 A N4 5CM 1 1_555 B DG 20 B O6 DG 10 1_555 hydrog WATSON-CRICK A 5CM 1 A O2 5CM 1 1_555 B DG 20 B N2 DG 10 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 B 5CM 19 B N3 5CM 9 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B 5CM 19 B O2 5CM 9 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B 5CM 19 B N4 5CM 9 1_555 hydrog 5CM-5CM MISPAIR A 5CM 3 A N4 5CM 3 1_555 B 5CM 17 B N3 5CM 7 1_555 hydrog WATSON-CRICK A 5CM 3 A N3 5CM 3 1_555 B DG 18 B N1 DG 8 1_555 hydrog WATSON-CRICK A 5CM 3 A N4 5CM 3 1_555 B DG 18 B O6 DG 8 1_555 hydrog WATSON-CRICK A 5CM 3 A O2 5CM 3 1_555 B DG 18 B N2 DG 8 1_555 hydrog WATSON-CRICK A DG 4 A N1 DG 4 1_555 B 5CM 17 B N3 5CM 7 1_555 hydrog WATSON-CRICK A DG 4 A N2 DG 4 1_555 B 5CM 17 B O2 5CM 7 1_555 hydrog WATSON-CRICK A DG 4 A O6 DG 4 1_555 B 5CM 17 B N4 5CM 7 1_555 hydrog WATSON-CRICK A 0DC 5 A N3 0DC 5 1_555 B 0DG 16 B N1 0DG 6 1_555 hydrog WATSON-CRICK A 0DC 5 A N4 0DC 5 1_555 B 0DG 16 B O6 0DG 6 1_555 hydrog WATSON-CRICK A 0DC 5 A O2 0DC 5 1_555 B 0DG 16 B N2 0DG 6 1_555 hydrog WATSON-CRICK A 0DG 6 A N1 0DG 6 1_555 B 0DC 15 B N3 0DC 5 1_555 hydrog WATSON-CRICK A 0DG 6 A N2 0DG 6 1_555 B 0DC 15 B O2 0DC 5 1_555 hydrog WATSON-CRICK A 0DG 6 A O6 0DG 6 1_555 B 0DC 15 B N4 0DC 5 1_555 hydrog WATSON-CRICK A 5CM 7 A N3 5CM 7 1_555 B DG 14 B N1 DG 4 1_555 hydrog WATSON-CRICK A 5CM 7 A N4 5CM 7 1_555 B DG 14 B O6 DG 4 1_555 hydrog WATSON-CRICK A 5CM 7 A O2 5CM 7 1_555 B DG 14 B N2 DG 4 1_555 hydrog WATSON-CRICK A DG 8 A N1 DG 8 1_555 B 5CM 13 B N3 5CM 3 1_555 hydrog WATSON-CRICK A DG 8 A N2 DG 8 1_555 B 5CM 13 B O2 5CM 3 1_555 hydrog WATSON-CRICK A DG 8 A O6 DG 8 1_555 B 5CM 13 B N4 5CM 3 1_555 hydrog WATSON-CRICK A 5CM 9 A N3 5CM 9 1_555 B DG 12 B N1 DG 2 1_555 hydrog WATSON-CRICK A 5CM 9 A N4 5CM 9 1_555 B DG 12 B O6 DG 2 1_555 hydrog WATSON-CRICK A 5CM 9 A O2 5CM 9 1_555 B DG 12 B N2 DG 2 1_555 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 B 5CM 11 B N3 5CM 1 1_555 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 B 5CM 11 B O2 5CM 1 1_555 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 B 5CM 11 B N4 5CM 1 1_555 DNA DNA POLYMORPHISM, L ENANTIOMERY, ANTISENSE, DNA 1fv7 pdb 1 1 1fv7 CGCGCGCGCG 1 10 1fv7 1 10 A 1 1 10 11 20 1fv7 11 20 B 1 1 10 1 P 1