1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Lee, J.-H. Hwang, G.-S. Choi, B.-S. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 C10 H17 N2 O9 P 340.224 n 5-HYDROXY-THYMIDINE-5'-MONOPHOSPHATE DNA linking 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 N 1 N P N 2 N O N 3 N O N 4 N O N 5 N C N 6 R C N 7 N O N 8 S C N 9 N O N 10 N C N 11 R C N 12 N N N 13 N C N 14 N O N 15 N N N 16 N C N 17 N O N 18 R C N 19 N C N 20 N O N 21 N C N 22 N O 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 H N 38 N H N 39 N H N 40 N O N 41 N P N 42 N O N 43 N O N 44 N O N 45 N C N 46 R C N 47 N O N 48 S C N 49 N O N 50 N C N 51 R C Y 52 N N Y 53 N C Y 54 N N Y 55 N C Y 56 N C N 57 N N Y 58 N N Y 59 N C Y 60 N N Y 61 N C 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 H N 72 N H N 73 N H N 74 N H N 75 N H N 76 N O N 77 N P N 78 N O N 79 N O N 80 N O N 81 N C N 82 R C N 83 N O N 84 S C N 85 N O N 86 N C N 87 R C N 88 N N N 89 N C N 90 N O N 91 N N N 92 N C N 93 N N N 94 N C N 95 N C 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 H N 109 N H N 110 N O N 111 N P N 112 N O N 113 N O N 114 N O N 115 N C N 116 R C N 117 N O N 118 S C N 119 N O N 120 N C N 121 R C Y 122 N N Y 123 N C Y 124 N N Y 125 N C N 126 N C N 127 N O N 128 N N N 129 N C N 130 N N N 131 N N Y 132 N C 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 H N 145 N H N 146 N H N 147 N O N 148 N P N 149 N O N 150 N O N 151 N O N 152 N C N 153 R C N 154 N O N 155 S C N 156 N O N 157 N C N 158 R C N 159 N N N 160 N C N 161 N O N 162 N N N 163 N C N 164 N O N 165 N C N 166 N C N 167 N C N 168 N H N 169 N H N 170 N H N 171 N H N 172 N H N 173 N H N 174 N H N 175 N H N 176 N H N 177 N H N 178 N H N 179 N H N 180 N H N 181 N H N 182 N H N 1 N doub N 2 N sing N 3 N sing 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 N 24 N sing N 25 N doub N 26 N sing N 27 N sing N 28 N sing N 29 N doub N 30 N sing N 31 N sing N 32 N sing N 33 N sing N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N doub 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 Y 64 N sing Y 65 N sing Y 66 N doub N 67 N sing Y 68 N sing Y 69 N sing Y 70 N doub N 71 N sing Y 72 N doub N 73 N sing N 74 N sing Y 75 N sing Y 76 N doub N 77 N sing Y 78 N sing N 79 N sing N 80 N sing N 81 N doub 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 N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N doub N 105 N sing N 106 N doub N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N doub N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N doub 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 Y 137 N sing Y 138 N sing Y 139 N doub N 140 N sing Y 141 N sing N 142 N sing Y 143 N doub N 144 N doub N 145 N sing N 146 N sing N 147 N sing N 148 N sing N 149 N doub N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N doub N 156 N sing N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N doub N 179 N sing N 180 N sing N 181 N sing N 182 N doub N 183 N sing N 184 N sing N 185 N doub N 186 N sing N 187 N sing N 188 N sing N 189 N sing US Proc.Natl.Acad.Sci.USA PNASA6 0040 0027-8424 96 6632 6636 10.1073/pnas.96.12.6632 10359763 Solution structure of a DNA decamer duplex containing the stable 3' T.G base pair of the pyrimidine(6-4)pyrimidone photoproduct [(6-4) adduct]: implications for the highly specific 3' T --> C transition of the (6-4) adduct. 1999 10.2210/pdb1cfl/pdb pdb_00001cfl 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 BOND FORMED BETWEEN C6(T5) AND C4(T6) 3022.997 DNA (5'-D(*CP*GP*CP*AP*(64T)P*TP*AP*CP*GP*C)-3') 1 syn polymer 3101.028 DNA (5'-D(*GP*CP*GP*TP*GP*AP*TP*GP*CP*G)-3') 1 syn polymer no yes (DC)(DG)(DC)(DA)(64T)(DT)(DA)(DC)(DG)(DC) CGCATTACGC A polydeoxyribonucleotide no no (DG)(DC)(DG)(DT)(DG)(DA)(DT)(DG)(DC)(DG) GCGTGATGCG B polydeoxyribonucleotide n n n n n n n n n n n n n n n n n n n n 21.253 1 19 A 1 B 20 -4.205 A_DC1:DG20_B 1 -20.677 0.436 -0.361 -0.195 9.444 1 19 A 2 B 19 -1.055 A_DG2:DC19_B 2 -2.196 -0.679 0.336 -0.180 -8.482 1 19 A 3 B 18 -3.760 A_DC3:DG18_B 3 3.485 0.173 0.393 -0.139 17.333 1 20 A 4 B 17 5.980 A_DA4:DT17_B 4 6.588 -0.253 0.187 -0.116 37.859 1 20 A 5 B 16 8.265 A_64T5:DA16_B 5 -28.906 0.477 -1.385 -0.142 -4.824 1 20 A 7 B 14 9.589 A_DA7:DT14_B 6 -6.920 -0.217 0.086 -0.187 -6.275 1 19 A 8 B 13 -0.818 A_DC8:DG13_B 7 -6.862 0.415 0.076 -0.131 5.225 1 19 A 9 B 12 -3.294 A_DG9:DC12_B 8 9.732 -0.354 -0.137 -0.252 -11.620 1 19 A 10 B 11 -8.472 A_DC10:DG11_B 9 13.556 0.112 -0.088 -0.138 2.455 32.932 A A 1 2 22.267 B B 20 19 3.364 12.274 0.196 -1.642 AA_DC1DG2:DC19DG20_BB 1 -5.472 9.928 30.135 -4.846 -1.216 3.287 44.943 A A 2 3 9.382 B B 19 18 3.458 7.144 -0.439 -0.935 AA_DG2DC3:DG18DC19_BB 2 -1.114 1.463 44.387 -1.892 0.470 2.566 32.430 A A 3 4 -16.650 B B 18 17 2.731 -9.168 0.891 0.437 AA_DC3DA4:DT17DG18_BB 3 2.621 -4.760 31.033 2.119 -1.214 3.010 37.705 A A 4 5 -17.544 B B 17 16 3.200 -10.709 0.650 -0.111 AA_DA464T5:DA16DT17_BB 4 18.465 -30.249 31.264 1.279 1.495 6.702 101.318 A A 5 7 42.174 B B 16 14 7.378 62.548 0.882 0.558 AA_64T5DA7:DT14DA16_BB 5 4.546 -3.065 84.135 -2.069 -0.394 3.160 34.510 A A 7 8 -2.751 B B 14 13 3.124 -1.632 -0.339 -0.811 AA_DA7DC8:DG13DT14_BB 6 -0.250 0.422 34.472 -1.124 0.535 2.763 33.643 A A 8 9 5.423 B B 13 12 2.826 3.134 0.136 -0.492 AA_DC8DG9:DC12DG13_BB 7 -1.277 2.210 33.478 -1.288 -0.414 3.388 38.559 A A 9 10 10.938 B B 12 11 3.722 7.182 -0.032 -1.507 AA_DG9DC10:DG11DC12_BB 8 1.447 -2.204 37.883 -3.256 0.245 database_2 pdbx_struct_assembly pdbx_struct_oper_list struct_conn chem_comp_atom chem_comp_bond repository Initial release Version format compliance Version format compliance Database references Derived calculations Data collection 1 0 1999-05-28 1 1 2008-04-26 1 2 2011-07-13 1 3 2022-02-16 1 4 2023-12-27 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id BNL Y RCSB 1999-03-19 REL REL MEAN STRUCTURE. THE STRUCTURE WAS DETERMINED USING SA METHOD WITH DISTANCE RESTRAINTS AND FULL RELAXATION MATRIX REFINEMENT WITH NOE INTENSITY RESTRAINTS OF 50, 80, 160 MS MIXING TIMES LEAST RESTRAINT VIOLATION 1 NOESY 6.6 274.0 K SIMULATED ANNEALING AND FULL RELAXATION MATRIX REFINEMENT 100% D2O OR 10% WATER/ 90% D2O BRUNGER refinement X-PLOR 3.1 structure solution X-PLOR 600 Bruker DMX C 1 n 1 DC 1 A G 2 n 2 DG 2 A C 3 n 3 DC 3 A A 4 n 4 DA 4 A +T 5 n 5 64T 5 A +T 6 n 6 DT 6 A A 7 n 7 DA 7 A C 8 n 8 DC 8 A G 9 n 9 DG 9 A C 10 n 10 DC 10 A G 11 n 1 DG 11 B C 12 n 2 DC 12 B G 13 n 3 DG 13 B T 14 n 4 DT 14 B G 15 n 5 DG 15 B A 16 n 6 DA 16 B T 17 n 7 DT 17 B G 18 n 8 DG 18 B C 19 n 9 DC 19 B G 20 n 10 DG 20 B author_defined_assembly 2 dimeric A 64T 5 5-HYDROXY-THYMIDINE-5'-MONOPHOSPHATE A 64T 5 DT 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 5.08 0.30 108.30 113.38 A A A O4' C1' N1 DC DC DC 1 1 1 N 1 6.60 1.10 118.80 125.40 A A A C2 N1 C1' DC DC DC 1 1 1 N 1 12.17 1.20 119.70 131.87 A A A C3' O3' P DG DG DC 2 2 3 Y 1 3.37 0.30 108.30 111.67 A A A O4' C1' N1 DC DC DC 3 3 3 N 1 9.27 1.20 119.70 128.97 A A A C3' O3' P DC DC DA 3 3 4 Y 1 17.16 1.20 119.70 136.86 A A A C3' O3' P DA DA 64T 4 4 5 Y 1 10.38 1.20 119.70 130.08 A A A C3' O3' P 64T 64T DT 5 5 6 Y 1 10.15 1.60 120.90 131.05 A A A P O5' C5' DT DT DT 6 6 6 N 1 -4.92 0.70 108.00 103.08 A A A O4' C1' N1 DT DT DT 6 6 6 N 1 -3.52 0.50 121.30 117.78 A A A C6 N1 C2 DT DT DT 6 6 6 N 1 -7.34 0.60 127.20 119.86 A A A C2 N3 C4 DT DT DT 6 6 6 N 1 8.39 0.60 115.20 123.59 A A A N3 C4 C5 DT DT DT 6 6 6 N 1 -3.67 0.60 122.30 118.63 A A A N3 C2 O2 DT DT DT 6 6 6 N 1 16.91 0.60 119.00 135.91 A A A C4 C5 C7 DT DT DT 6 6 6 N 1 -15.10 0.60 122.90 107.80 A A A C6 C5 C7 DT DT DT 6 6 6 N 1 13.03 1.20 119.70 132.73 A A A C3' O3' P DT DT DA 6 6 7 Y 1 11.36 1.20 119.70 131.06 A A A C3' O3' P DA DA DC 7 7 8 Y 1 11.12 1.20 119.70 130.82 A A A C3' O3' P DC DC DG 8 8 9 Y 1 13.54 1.20 119.70 133.24 A A A C3' O3' P DG DG DC 9 9 10 Y 1 5.02 0.70 119.90 124.92 B B B N3 C2 N2 DG DG DG 11 11 11 N 1 7.23 1.20 119.70 126.93 B B B C3' O3' P DG DG DC 11 11 12 Y 1 4.16 0.30 108.30 112.46 B B B O4' C1' N1 DC DC DC 12 12 12 N 1 9.94 1.20 119.70 129.64 B B B C3' O3' P DC DC DG 12 12 13 Y 1 16.67 1.60 120.90 137.57 B B B P O5' C5' DG DG DG 13 13 13 N 1 9.36 1.20 119.70 129.06 B B B C3' O3' P DG DG DT 13 13 14 Y 1 6.15 0.30 108.30 114.45 B B B O4' C1' N1 DT DT DT 14 14 14 N 1 14.76 0.60 119.00 133.76 B B B C4 C5 C7 DT DT DT 14 14 14 N 1 -14.98 0.60 122.90 107.92 B B B C6 C5 C7 DT DT DT 14 14 14 N 1 11.27 1.20 119.70 130.97 B B B C3' O3' P DT DT DG 14 14 15 Y 1 15.32 1.60 120.90 136.22 B B B P O5' C5' DG DG DG 15 15 15 N 1 -4.84 0.80 102.40 97.56 B B B C3' C2' C1' DG DG DG 15 15 15 N 1 5.31 0.70 119.90 125.21 B B B N3 C2 N2 DG DG DG 15 15 15 N 1 11.17 1.20 119.70 130.87 B B B C3' O3' P DG DG DA 15 15 16 Y 1 4.18 0.50 113.80 117.98 B B B N7 C8 N9 DA DA DA 16 16 16 N 1 4.40 0.60 118.60 123.00 B B B N1 C6 N6 DA DA DA 16 16 16 N 1 -6.27 0.80 102.40 96.13 B B B C3' C2' C1' DT DT DT 17 17 17 N 1 7.17 0.30 108.30 115.47 B B B O4' C1' N1 DT DT DT 17 17 17 N 1 4.94 0.60 123.70 128.64 B B B C5 C6 N1 DT DT DT 17 17 17 N 1 18.16 0.60 119.00 137.16 B B B C4 C5 C7 DT DT DT 17 17 17 N 1 -18.76 0.60 122.90 104.14 B B B C6 C5 C7 DT DT DT 17 17 17 N 1 -12.12 1.50 120.40 108.28 B B B C6 N1 C1' DT DT DT 17 17 17 N 1 11.99 1.60 118.20 130.19 B B B C2 N1 C1' DT DT DT 17 17 17 N 1 16.11 1.20 119.70 135.81 B B B C3' O3' P DT DT DG 17 17 18 Y 1 9.18 1.20 119.70 128.88 B B B C3' O3' P DG DG DC 18 18 19 Y 1 3.33 0.30 108.30 111.63 B B B O4' C1' N1 DC DC DC 19 19 19 N 1 12.43 1.20 119.70 132.13 B B B C3' O3' P DC DC DG 19 19 20 Y 1 2.03 0.30 108.30 110.33 B B B O4' C1' N9 DG DG DG 20 20 20 N 1 3.01 0.50 113.10 116.11 B B B N7 C8 N9 DG DG DG 20 20 20 N 1 6.16 0.70 119.90 126.06 B B B N3 C2 N2 DG DG DG 20 20 20 N 1 A A N1 C6 DC DC 1 1 -0.042 0.006 1.367 1.325 N 1 A A C8 N9 DG DG 2 2 -0.050 0.007 1.374 1.324 N 1 A A C5' C4' DT DT 6 6 0.066 0.007 1.512 1.578 N 1 A A N1 C2 DT DT 6 6 0.070 0.008 1.376 1.446 N 1 A A C4 C5 DT DT 6 6 -0.079 0.009 1.445 1.366 N 1 A A C8 N9 DA DA 7 7 -0.056 0.008 1.373 1.317 N 1 A A C3' C2' DC DC 8 8 -0.050 0.008 1.516 1.466 N 1 A A C8 N9 DG DG 9 9 -0.061 0.007 1.374 1.313 N 1 B B C6 N1 DT DT 14 14 -0.061 0.007 1.378 1.317 N 1 B B C8 N9 DA DA 16 16 -0.060 0.008 1.373 1.313 N 1 B B C2' C1' DT DT 17 17 0.084 0.010 1.519 1.603 N 1 B B N3 C4 DT DT 17 17 0.052 0.008 1.382 1.434 N 1 B B C5 C6 DT DT 17 17 -0.047 0.007 1.339 1.292 N 1 B B C6 N1 DT DT 17 17 -0.084 0.007 1.378 1.294 N 1 B B C8 N9 DG DG 20 20 -0.050 0.007 1.374 1.324 N DNA DECAMER DUPLEX CONTAINING T5-T6 PHOTOADDUCT 1 N N 2 N N covale 1.614 both A DA 4 A O3' DA 4 1_555 A 64T 5 A P 64T 5 1_555 covale 1.593 none A 64T 5 A C6 64T 5 1_555 A DT 6 A C4 DT 6 1_555 covale 1.642 both A 64T 5 A O3' 64T 5 1_555 A DT 6 A P DT 6 1_555 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 DG 2 A N1 DG 2 1_555 B DC 19 B N3 DC 9 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B DC 19 B O2 DC 9 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B DC 19 B N4 DC 9 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 B DG 18 B N1 DG 8 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 B DG 18 B O6 DG 8 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 B DG 18 B N2 DG 8 1_555 hydrog WATSON-CRICK A DA 4 A N1 DA 4 1_555 B DT 17 B N3 DT 7 1_555 hydrog WATSON-CRICK A DA 4 A N6 DA 4 1_555 B DT 17 B O4 DT 7 1_555 hydrog WATSON-CRICK A 64T 5 A N3 64T 5 1_555 B DA 16 B N1 DA 6 1_555 hydrog WATSON-CRICK A 64T 5 A O4 64T 5 1_555 B DA 16 B N6 DA 6 1_555 hydrog WATSON-CRICK A DA 7 A N1 DA 7 1_555 B DT 14 B N3 DT 4 1_555 hydrog WATSON-CRICK A DA 7 A N6 DA 7 1_555 B DT 14 B O4 DT 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 DC 10 A N3 DC 10 1_555 B DG 11 B N1 DG 1 1_555 hydrog WATSON-CRICK A DC 10 A N4 DC 10 1_555 B DG 11 B O6 DG 1 1_555 hydrog WATSON-CRICK A DC 10 A O2 DC 10 1_555 B DG 11 B N2 DG 1 1_555 DNA DNA PHOTOPRODUCT, (6-4) ADDUCT, MUTAGENESIS, DEOXYRIBONUCLEIC ACID, DNA 1CFL PDB 1 1CFL 1CFL PDB 2 1CFL 1 10 1CFL 1 10 1CFL A 1 1 10 11 20 1CFL 11 20 1CFL B 2 1 10 1 P 1