0.015601 0.000000 0.009748 0.000000 0.038610 0.000000 0.000000 0.000000 0.029553 0.00000 0.00000 0.00000 Eichman, B.F. Vargason, J.M. Mooers, B.H.M. Ho, P.S. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 122.00 90.00 64.100 25.900 39.900 C10 H14 N5 O6 P 331.222 y 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE DNA linking C9 H14 N3 O7 P 307.197 y 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O7 P 347.221 y 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE DNA linking C10 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA linking H2 O 18.015 WATER non-polymer N 1 N O N 2 N P N 3 N O N 4 N O N 5 N O N 6 N C N 7 R C N 8 N O N 9 S C N 10 N O N 11 N C N 12 R C Y 13 N N Y 14 N C Y 15 N N Y 16 N C Y 17 N C N 18 N N Y 19 N N Y 20 N C Y 21 N N Y 22 N C N 23 N H N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N O N 38 N P N 39 N O N 40 N O N 41 N O N 42 N C N 43 R C N 44 N O N 45 S C N 46 N O N 47 N C N 48 R C N 49 N N N 50 N C N 51 N O N 52 N N N 53 N C N 54 N N N 55 N C N 56 N C N 57 N H N 58 N H N 59 N H N 60 N H N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N H N 71 N O N 72 N P N 73 N O N 74 N O N 75 N O N 76 N C N 77 R C N 78 N O N 79 S C N 80 N O N 81 N C N 82 R C Y 83 N N Y 84 N C Y 85 N N Y 86 N C N 87 N C N 88 N O N 89 N N N 90 N C N 91 N N N 92 N N Y 93 N C N 94 N H N 95 N H N 96 N H N 97 N H N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N O N 109 N P N 110 N O N 111 N O N 112 N O N 113 N C N 114 R C N 115 N O N 116 S C N 117 N O N 118 N C N 119 R C N 120 N N N 121 N C N 122 N O N 123 N N N 124 N C N 125 N O N 126 N C N 127 N C N 128 N C N 129 N H N 130 N H N 131 N H N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N O N 145 N H N 146 N H N 1 N sing N 2 N sing N 3 N doub N 4 N sing N 5 N sing N 6 N sing N 7 N sing N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N sing N 20 N sing N 21 N sing N 22 N sing N 23 N sing Y 24 N sing Y 25 N sing Y 26 N doub N 27 N sing Y 28 N sing Y 29 N sing Y 30 N doub N 31 N sing Y 32 N doub N 33 N sing N 34 N sing Y 35 N sing Y 36 N doub N 37 N sing Y 38 N sing N 39 N sing N 40 N sing N 41 N doub N 42 N sing N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N doub N 65 N sing N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N doub N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing Y 97 N sing Y 98 N sing Y 99 N doub N 100 N sing Y 101 N sing N 102 N sing Y 103 N doub N 104 N doub N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N doub N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N doub N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N doub N 139 N sing N 140 N sing N 141 N sing N 142 N doub N 143 N sing N 144 N sing N 145 N doub N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing US Proc.Natl.Acad.Sci.USA PNASA6 0040 0027-8424 97 3971 3976 10.1073/pnas.97.8.3971 10760268 The Holliday junction in an inverted repeat DNA sequence: sequence effects on the structure of four-way junctions. 2000 10.2210/pdb1dcv/pdb pdb_00001dcv 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 277.0 1 YALE MIRRORS IMAGE PLATE 1999-06-15 RIGAKU RAXIS IV SINGLE WAVELENGTH M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE RIGAKU RU300 3045.993 DNA (5'-D(*CP*CP*GP*CP*TP*AP*GP*CP*GP*G)-3') 2 syn polymer 18.015 water 23 nat water no no (DC)(DC)(DG)(DC)(DT)(DA)(DG)(DC)(DG)(DG) CCGCTAGCGG A,B polydeoxyribonucleotide n n n n n n n n n n 1 2.20 44.12 7.00 pH 7.00 -7.012 1 19 A 1 B 20 2.071 A_DC1:DG20_B 1 -17.384 0.053 0.037 -0.172 3.846 1 19 A 2 B 19 3.961 A_DC2:DG19_B 2 -5.500 -0.635 0.065 0.032 -6.708 1 19 A 3 B 18 5.436 A_DG3:DC18_B 3 -19.335 0.093 0.278 0.201 -6.419 1 19 A 4 B 17 2.888 A_DC4:DG17_B 4 -1.514 -0.371 0.169 -0.127 -3.744 1 20 A 5 B 16 0.917 A_DT5:DA16_B 5 -7.751 -0.423 -0.008 -0.272 3.264 1 20 A 6 B 15 -9.355 A_DA6:DT15_B 6 -15.421 0.215 0.429 -0.082 4.168 1 19 A 7 B 14 -2.837 A_DG7:DC14_B 7 0.962 0.526 0.279 -0.128 -4.219 1 19 A 8 B 13 -10.051 A_DC8:DG13_B 8 -8.935 1.120 0.166 -0.473 -8.515 1 19 A 9 B 12 0.241 A_DG9:DC12_B 9 -9.615 0.891 -0.299 0.150 10.382 1 19 A 10 B 11 -8.787 A_DG10:DC11_B 10 -3.096 0.334 0.802 -0.316 3.160 38.271 A A 1 2 -1.494 B B 20 19 3.212 -0.979 0.331 2.174 AA_DC1DC2:DG19DG20_BB 1 0.307 -0.468 38.258 3.435 -0.467 3.917 41.706 A A 2 3 6.079 B B 19 18 3.734 4.317 -0.494 1.767 AA_DC2DG3:DC18DG19_BB 2 -3.328 4.686 41.364 1.948 0.282 3.436 32.001 A A 3 4 -5.339 B B 18 17 3.394 -2.939 0.040 -0.628 AA_DG3DC4:DG17DC18_BB 3 -0.281 0.510 31.868 -0.584 -0.126 3.422 26.962 A A 4 5 5.104 B B 17 16 3.458 2.372 -0.269 0.303 AA_DC4DT5:DA16DG17_BB 4 2.959 -6.368 26.699 0.010 1.377 3.027 48.795 A A 5 6 -5.692 B B 16 15 3.177 -4.694 -0.267 1.618 AA_DT5DA6:DT15DA16_BB 5 -2.461 2.984 48.524 2.299 0.145 3.446 38.294 A A 6 7 4.866 B B 15 14 3.450 3.187 0.447 -0.163 AA_DA6DG7:DC14DT15_BB 6 2.296 -3.506 38.099 -0.670 -0.377 3.603 35.438 A A 7 8 -1.702 B B 14 13 3.622 -1.035 -0.418 -0.145 AA_DG7DC8:DG13DC14_BB 7 1.558 -2.560 35.391 -0.070 0.939 3.711 36.833 A A 8 9 8.693 B B 13 12 3.643 5.458 0.639 0.375 AA_DC8DG9:DC12DG13_BB 8 4.996 -7.957 36.108 -0.248 -0.241 2.723 36.751 A A 9 10 -5.399 B B 12 11 2.961 -3.338 -0.124 1.189 AA_DG9DG10:DC11DC12_BB 9 -12.324 19.934 34.534 2.295 -1.313 software chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model repository Initial release Version format compliance Version format compliance Refinement description Data collection Database references Refinement description 1 0 2000-04-17 1 1 2008-04-27 1 2 2011-07-13 1 3 2017-10-04 1 4 2024-02-07 1 5 2024-04-03 _database_2.pdbx_DOI _database_2.pdbx_database_accession RCSB Y RCSB 1999-11-05 REL REL HOH water IDEAL B-DNA Other in silico model HOH 23 2 HOH HOH 23 A HOH 24 2 HOH HOH 24 A HOH 25 2 HOH HOH 25 A HOH 27 2 HOH HOH 27 A HOH 28 2 HOH HOH 28 A HOH 30 2 HOH HOH 30 A HOH 32 2 HOH HOH 32 A HOH 35 2 HOH HOH 35 A HOH 37 2 HOH HOH 37 A HOH 38 2 HOH HOH 38 A HOH 40 2 HOH HOH 40 A HOH 41 2 HOH HOH 41 A HOH 42 2 HOH HOH 42 A HOH 21 2 HOH HOH 21 B HOH 22 2 HOH HOH 22 B HOH 26 2 HOH HOH 26 B HOH 29 2 HOH HOH 29 B HOH 31 2 HOH HOH 31 B HOH 33 2 HOH HOH 33 B HOH 34 2 HOH HOH 34 B HOH 36 2 HOH HOH 36 B HOH 39 2 HOH HOH 39 B HOH 43 2 HOH HOH 43 B C 1 n 1 DC 1 A C 2 n 2 DC 2 A G 3 n 3 DG 3 A C 4 n 4 DC 4 A T 5 n 5 DT 5 A A 6 n 6 DA 6 A G 7 n 7 DG 7 A C 8 n 8 DC 8 A G 9 n 9 DG 9 A G 10 n 10 DG 10 A C 11 n 1 DC 11 B C 12 n 2 DC 12 B G 13 n 3 DG 13 B C 14 n 4 DC 14 B T 15 n 5 DT 15 B A 16 n 6 DA 16 B G 17 n 7 DG 17 B C 18 n 8 DC 18 B G 19 n 9 DG 19 B G 20 n 10 DG 20 B author_defined_assembly 2 dimeric 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 1 A A O4' O DC HOH 8 42 2.18 -8.58410 0.00000 -1.84650 16.88670 0.00000 -8.30250 ANISOTROPIC B VALUES WERE APPLIED TO FCALC DURING REFINEMENT IN ORDER TO SCALE FCALC TO FOBS 0.3170000 0.2070000 0.2070000 2.50 10.00 178 1943 10.000 98.6 RANDOM 1 THROUGHOUT 2.000 MOLECULAR REPLACEMENT IDEAL B-DNA 2.50 10.00 23 427 0 404 0 0.005 1.00 2.59 22 144 10 95.4 21.60 2.490 33.810 1DCV 2009 0.000 0.0500000 1 12.8000 3.700 98.2 0.4180000 2.49 2.58 3.1 3.37 91.6 phasing EPMR refinement X-PLOR 3.851 data scaling d*TREK B-DNA DECAMER WITH CENTRAL TA DINUCLEOTIDE 1 N N 1 N N 2 N N 2 N N hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 B DG 20 B N1 DG 10 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 B DG 20 B O6 DG 10 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 B DG 20 B N2 DG 10 1_555 hydrog WATSON-CRICK A DC 2 A N3 DC 2 1_555 B DG 19 B N1 DG 9 1_555 hydrog WATSON-CRICK A DC 2 A N4 DC 2 1_555 B DG 19 B O6 DG 9 1_555 hydrog WATSON-CRICK A DC 2 A O2 DC 2 1_555 B DG 19 B N2 DG 9 1_555 hydrog WATSON-CRICK A DG 3 A N1 DG 3 1_555 B DC 18 B N3 DC 8 1_555 hydrog WATSON-CRICK A DG 3 A N2 DG 3 1_555 B DC 18 B O2 DC 8 1_555 hydrog WATSON-CRICK A DG 3 A O6 DG 3 1_555 B DC 18 B N4 DC 8 1_555 hydrog WATSON-CRICK A DC 4 A N3 DC 4 1_555 B DG 17 B N1 DG 7 1_555 hydrog WATSON-CRICK A DC 4 A N4 DC 4 1_555 B DG 17 B O6 DG 7 1_555 hydrog WATSON-CRICK A DC 4 A O2 DC 4 1_555 B DG 17 B N2 DG 7 1_555 hydrog WATSON-CRICK A DT 5 A N3 DT 5 1_555 B DA 16 B N1 DA 6 1_555 hydrog WATSON-CRICK A DT 5 A O4 DT 5 1_555 B DA 16 B N6 DA 6 1_555 hydrog WATSON-CRICK A DA 6 A N1 DA 6 1_555 B DT 15 B N3 DT 5 1_555 hydrog WATSON-CRICK A DA 6 A N6 DA 6 1_555 B DT 15 B O4 DT 5 1_555 hydrog WATSON-CRICK A DG 7 A N1 DG 7 1_555 B DC 14 B N3 DC 4 1_555 hydrog WATSON-CRICK A DG 7 A N2 DG 7 1_555 B DC 14 B O2 DC 4 1_555 hydrog WATSON-CRICK A DG 7 A O6 DG 7 1_555 B DC 14 B N4 DC 4 1_555 hydrog WATSON-CRICK A DC 8 A N3 DC 8 1_555 B DG 13 B N1 DG 3 1_555 hydrog WATSON-CRICK A DC 8 A N4 DC 8 1_555 B DG 13 B O6 DG 3 1_555 hydrog WATSON-CRICK A DC 8 A O2 DC 8 1_555 B DG 13 B N2 DG 3 1_555 hydrog WATSON-CRICK A DG 9 A N1 DG 9 1_555 B DC 12 B N3 DC 2 1_555 hydrog WATSON-CRICK A DG 9 A N2 DG 9 1_555 B DC 12 B O2 DC 2 1_555 hydrog WATSON-CRICK A DG 9 A O6 DG 9 1_555 B DC 12 B N4 DC 2 1_555 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 B DC 11 B N3 DC 1 1_555 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 B DC 11 B O2 DC 1 1_555 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 B DC 11 B N4 DC 1 1_555 DNA CENTRAL TA DINUCLEOTIDE, DEOXYRIBONUCLEIC ACID, DNA 1DCV PDB 1 1DCV 1 10 1DCV 1 10 1DCV A 1 1 10 11 20 1DCV 11 20 1DCV B 1 1 10 5 monoclinic C 1 2 1