1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Beger, R.D. Bolton, P.H. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 C5 H11 O7 P 214.110 2'-DEOXY-RIBOFURANOSE-5'-MONOPHOSPHATE ABASIC DEOXYRIBOSE 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 H2 O 18.015 WATER non-polymer N 1 N P N 2 N O 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 R C N 10 N O N 11 N C N 12 S C N 13 N O N 14 N H N 15 N H N 16 N H N 17 N H N 18 N H N 19 N H N 20 N H N 21 N H N 22 N H N 23 N H N 24 N H N 25 N O N 26 N P N 27 N O N 28 N O N 29 N O N 30 N C N 31 R C N 32 N O N 33 S C N 34 N O N 35 N C N 36 R C Y 37 N N Y 38 N C Y 39 N N Y 40 N C Y 41 N C N 42 N N Y 43 N N Y 44 N C Y 45 N N Y 46 N C N 47 N H N 48 N H N 49 N H N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N H N 59 N H N 60 N H N 61 N O N 62 N P N 63 N O N 64 N O N 65 N O N 66 N C N 67 R C N 68 N O N 69 S C N 70 N O N 71 N C N 72 R C N 73 N N N 74 N C N 75 N O N 76 N N N 77 N C N 78 N N N 79 N C N 80 N C N 81 N H N 82 N H N 83 N H N 84 N H N 85 N H N 86 N H N 87 N H N 88 N H N 89 N H N 90 N H N 91 N H N 92 N H N 93 N H N 94 N H N 95 N O N 96 N P N 97 N O N 98 N O N 99 N O N 100 N C N 101 R C N 102 N O N 103 S C N 104 N O N 105 N C N 106 R C Y 107 N N Y 108 N C Y 109 N N Y 110 N C N 111 N C N 112 N O N 113 N N N 114 N C N 115 N N N 116 N N Y 117 N C N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N H N 124 N H N 125 N H N 126 N H N 127 N H N 128 N H N 129 N H N 130 N H N 131 N H N 132 N O N 133 N P N 134 N O N 135 N O N 136 N O N 137 N C N 138 R C N 139 N O N 140 S C N 141 N O N 142 N C N 143 R C N 144 N N N 145 N C N 146 N O N 147 N N N 148 N C N 149 N O N 150 N C N 151 N C N 152 N C N 153 N H N 154 N H N 155 N H N 156 N H N 157 N H N 158 N H N 159 N H N 160 N H N 161 N H N 162 N H N 163 N H N 164 N H N 165 N H N 166 N H N 167 N H N 168 N O N 169 N H N 170 N H N 1 N sing N 2 N doub 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 sing N 26 N sing N 27 N doub N 28 N sing N 29 N sing 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 sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing Y 48 N sing Y 49 N sing Y 50 N doub N 51 N sing Y 52 N sing Y 53 N sing Y 54 N doub N 55 N sing Y 56 N doub N 57 N sing N 58 N sing Y 59 N sing Y 60 N doub N 61 N sing Y 62 N sing N 63 N sing N 64 N sing N 65 N doub N 66 N sing N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N sing 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 doub N 89 N sing N 90 N doub N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N doub N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N doub N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing Y 121 N sing Y 122 N sing Y 123 N doub N 124 N sing Y 125 N sing N 126 N sing Y 127 N doub N 128 N doub N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N doub N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N sing N 139 N doub N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N sing N 145 N sing N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing 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 doub N 163 N sing N 164 N sing N 165 N sing N 166 N doub N 167 N sing N 168 N sing N 169 N doub N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing US J.Biol.Chem. JBCHA3 0071 0021-9258 273 15565 15573 10.1074/jbc.273.25.15565 9624147 Structures of apurinic and apyrimidinic sites in duplex DNAs. 1998 10.2210/pdb1a9g/pdb pdb_00001a9g 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 3211.077 DNA (5'-D(*CP*GP*CP*GP*AP*AABP*AP*CP*GP*CP*C)-3') 1 syn polymer 3366.184 DNA (5'-D(*GP*GP*CP*GP*TP*CP*TP*CP*GP*CP*G)-3') 1 syn polymer 18.015 water 1 nat water no yes (DC)(DG)(DC)(DG)(DA)(AAB)(DA)(DC)(DG)(DC)(DC) CGCGAXACGCC A polydeoxyribonucleotide no no (DG)(DG)(DC)(DG)(DT)(DC)(DT)(DC)(DG)(DC)(DG) GGCGTCTCGCG B polydeoxyribonucleotide n n n n n n n n n n n n n n n n n n n n n n 8.217 1 19 A 1 B 22 -2.038 A_DC1:DG22_B 1 -5.756 0.299 0.201 -0.714 12.412 1 19 A 2 B 21 -1.342 A_DG2:DC21_B 2 3.592 -0.561 0.233 -0.517 11.292 1 19 A 3 B 20 -2.915 A_DC3:DG20_B 3 -4.399 0.429 -0.207 -0.476 8.783 1 19 A 4 B 19 0.264 A_DG4:DC19_B 4 -2.282 -0.654 0.310 -0.385 4.944 1 20 A 5 B 18 -3.803 A_DA5:DT18_B 5 -15.935 0.104 0.079 -0.130 14.611 1 20 A 7 B 16 -3.630 A_DA7:DT16_B 6 -27.826 0.247 0.204 -0.188 14.224 1 19 A 8 B 15 -1.532 A_DC8:DG15_B 7 -20.404 0.454 -0.157 -0.316 -1.709 1 19 A 9 B 14 -1.828 A_DG9:DC14_B 8 -2.324 -0.437 0.039 -0.369 -4.201 1 19 A 10 B 13 -0.176 A_DC10:DG13_B 9 -3.311 0.691 0.001 -0.445 -2.221 1 19 A 11 B 12 -2.271 A_DC11:DG12_B 10 2.483 0.690 0.142 -0.612 3.118 34.808 A A 1 2 -1.169 B B 22 21 3.109 -0.699 0.105 -1.014 AA_DC1DG2:DC21DG22_BB 1 -1.864 3.117 34.753 -1.594 -0.446 3.394 42.412 A A 2 3 -4.670 B B 21 20 3.345 -3.374 0.065 -0.797 AA_DG2DC3:DG20DC21_BB 2 2.479 -3.432 42.215 -0.747 0.170 3.804 29.461 A A 3 4 -10.562 B B 20 19 3.699 -5.330 0.267 -1.248 AA_DC3DG4:DC19DG20_BB 3 -3.560 7.055 28.771 -1.132 -1.407 3.624 47.444 A A 4 5 -14.234 B B 19 18 3.830 -11.353 -0.778 0.528 AA_DG4DA5:DT18DC19_BB 4 -0.885 1.110 46.134 1.718 0.885 6.003 85.144 A A 5 7 8.510 B B 18 16 5.861 11.485 -0.481 1.459 AA_DA5DA7:DT16DT18_BB 5 -5.556 4.116 84.363 0.597 0.122 3.243 36.981 A A 7 8 -7.365 B B 16 15 3.153 -4.653 0.858 -0.372 AA_DA7DC8:DG15DT16_BB 6 3.716 -5.882 36.515 0.030 -0.860 2.753 29.580 A A 8 9 15.435 B B 15 14 3.308 7.790 1.012 -1.562 AA_DC8DG9:DC14DG15_BB 7 -1.154 2.287 28.535 -4.616 -2.212 3.282 45.925 A A 9 10 -3.139 B B 14 13 3.238 -2.448 -0.017 -0.945 AA_DG9DC10:DG13DC14_BB 8 -0.216 0.277 45.863 -1.000 0.003 3.136 36.039 A A 10 11 4.697 B B 13 12 3.219 2.902 -0.241 -1.024 AA_DC10DC11:DG12DG13_BB 9 -1.400 2.266 35.899 -2.056 0.197 chem_comp_atom chem_comp_bond database_2 pdbx_database_status struct_conn repository Initial release Version format compliance Version format compliance Non-polymer description Data collection Database references Derived calculations Other 1 0 1998-07-15 1 1 2008-03-24 1 2 2011-07-13 1 3 2014-07-09 1 4 2024-04-10 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site _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 Y BNL 1998-04-06 REL HOH water 100MS NOESY, 250MS NOESY 250MS QUIETNOESY 70MS BAND-SELECTIVE J TOCSY FOR PHOSPHOROUS "J SCALE" SET TO 2 AND 3 AVERAGE OF 5 STRUCTURES THAT THE NOESY BACK CALCULATION AGREES WITH EXPERIMENTAL NOESY 100 1 NOESY PECOSY TOCSY ROESY QUIET-NOESY 50 mM KCL 7.0 1 atm 300 K matrix relaxation TRIS BRUNGER refinement X-PLOR 3.1 structure solution VNMR 400 Varian UNITY 500 Varian INOVA HOH 23 3 HOH HOH 23 B C 1 n 1 DC 1 A G 2 n 2 DG 2 A C 3 n 3 DC 3 A G 4 n 4 DG 4 A A 5 n 5 DA 5 A AAB 6 n 6 AAB 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 C 11 n 11 DC 11 A G 12 n 1 DG 12 B G 13 n 2 DG 13 B C 14 n 3 DC 14 B G 15 n 4 DG 15 B T 16 n 5 DT 16 B C 17 n 6 DC 17 B T 18 n 7 DT 18 B C 19 n 8 DC 19 B G 20 n 9 DG 20 B C 21 n 10 DC 21 B G 22 n 11 DG 22 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 B C3' DG 22 WRONG HAND 1 A B HO1' H1 AAB HOH 6 23 1.28 1 -4.23 0.70 102.20 97.97 A A A C4' C3' C2' DC DC DC 1 1 1 N 1 6.35 0.30 108.30 114.65 A A A O4' C1' N1 DC DC DC 1 1 1 N 1 -3.21 0.40 120.30 117.09 A A A C6 N1 C2 DC DC DC 1 1 1 N 1 4.11 0.50 119.90 124.01 A A A C2 N3 C4 DC DC DC 1 1 1 N 1 -3.91 0.40 121.90 117.99 A A A N3 C4 C5 DC DC DC 1 1 1 N 1 3.38 0.50 121.00 124.38 A A A C5 C6 N1 DC DC DC 1 1 1 N 1 8.04 1.20 119.70 127.74 A A A C3' O3' P DG DG DC 2 2 3 Y 1 5.30 0.60 106.00 111.30 A A A O4' C4' C3' DC DC DC 3 3 3 N 1 2.55 0.30 108.30 110.85 A A A O4' C1' N1 DC DC DC 3 3 3 N 1 -4.41 0.70 102.20 97.79 A A A C4' C3' C2' DA DA DA 7 7 7 N 1 -4.44 0.70 108.00 103.56 A A A O4' C1' N9 DA DA DA 7 7 7 N 1 -7.46 0.80 105.90 98.44 A A A O4' C1' C2' DC DC DC 8 8 8 N 1 5.92 0.30 108.30 114.22 A A A O4' C1' N1 DC DC DC 8 8 8 N 1 5.96 0.30 108.30 114.26 A A A O4' C1' N9 DG DG DG 9 9 9 N 1 9.25 1.20 119.70 128.95 A A A C3' O3' P DG DG DC 9 9 10 Y 1 2.46 0.30 108.30 110.76 A A A O4' C1' N1 DC DC DC 10 10 10 N 1 3.81 0.60 118.90 122.71 A A A N1 C2 O2 DC DC DC 10 10 10 N 1 7.25 1.20 119.70 126.95 A A A C3' O3' P DC DC DC 10 10 11 Y 1 -3.23 0.50 117.40 114.17 A A A C4 C5 C6 DC DC DC 11 11 11 N 1 3.99 0.60 118.90 122.89 A A A N1 C2 O2 DC DC DC 11 11 11 N 1 -4.36 0.70 102.20 97.84 B B B C4' C3' C2' DG DG DG 12 12 12 N 1 4.28 0.30 108.30 112.58 B B B O4' C1' N9 DG DG DG 12 12 12 N 1 5.62 0.30 108.30 113.92 B B B O4' C1' N9 DG DG DG 13 13 13 N 1 2.79 0.40 105.40 108.19 B B B N9 C4 C5 DG DG DG 13 13 13 N 1 2.29 0.30 108.30 110.59 B B B O4' C1' N1 DC DC DC 14 14 14 N 1 -4.20 0.70 121.90 117.70 B B B N3 C2 O2 DC DC DC 14 14 14 N 1 7.49 1.20 119.70 127.19 B B B C3' O3' P DC DC DG 14 14 15 Y 1 7.81 1.20 119.70 127.51 B B B C3' O3' P DG DG DT 15 15 16 Y 1 2.04 0.30 108.30 110.34 B B B O4' C1' N1 DC DC DC 17 17 17 N 1 -3.82 0.60 122.90 119.08 B B B C6 C5 C7 DT DT DT 18 18 18 N 1 10.31 1.20 119.70 130.01 B B B C3' O3' P DT DT DC 18 18 19 Y 1 9.10 1.20 119.70 128.80 B B B C3' O3' P DC DC DG 19 19 20 Y 1 10.29 1.20 119.70 129.99 B B B C3' O3' P DG DG DC 20 20 21 Y 1 9.08 1.20 119.70 128.78 B B B C3' O3' P DC DC DG 21 21 22 Y 1 18.03 1.20 102.50 120.53 B B B C3' C2' C1' DG DG DG 22 22 22 N 1 -5.71 0.80 105.90 100.19 B B B O4' C1' C2' DG DG DG 22 22 22 N 1 4.91 0.30 108.30 113.21 B B B O4' C1' N9 DG DG DG 22 22 22 N 1 4.83 0.50 111.90 116.73 B B B C2 N3 C4 DG DG DG 22 22 22 N 1 5.09 0.50 111.50 116.59 B B B C5 C6 N1 DG DG DG 22 22 22 N 1 3.55 0.50 104.30 107.85 B B B C5 N7 C8 DG DG DG 22 22 22 N 1 -4.25 0.50 113.10 108.85 B B B N7 C8 N9 DG DG DG 22 22 22 N 1 3.31 0.40 106.40 109.71 B B B C8 N9 C4 DG DG DG 22 22 22 N 1 4.02 0.60 130.40 134.42 B B B C6 C5 N7 DG DG DG 22 22 22 N 1 -5.18 0.60 119.90 114.72 B B B N1 C6 O6 DG DG DG 22 22 22 N 1 A A O5' C5' DC DC 1 1 -0.183 0.025 1.418 1.235 N 1 A A C5' C4' DC DC 1 1 -0.229 0.011 1.509 1.280 N 1 A A C4' C3' DC DC 1 1 -0.163 0.010 1.521 1.358 N 1 A A C3' C2' DC DC 1 1 -0.063 0.008 1.516 1.453 N 1 A A C2' C1' DC DC 1 1 -0.176 0.010 1.518 1.342 N 1 A A O4' C1' DC DC 1 1 -0.081 0.012 1.418 1.337 N 1 A A O4' C4' DC DC 1 1 -0.118 0.010 1.446 1.328 N 1 A A O3' C3' DC DC 1 1 -0.126 0.006 1.419 1.293 N 1 A A C2 O2 DC DC 1 1 -0.126 0.009 1.240 1.114 N 1 A A C4 N4 DC DC 1 1 -0.089 0.009 1.335 1.246 N 1 A A N1 C2 DC DC 1 1 -0.173 0.010 1.397 1.224 N 1 A A N1 C6 DC DC 1 1 -0.120 0.006 1.367 1.247 N 1 A A C2 N3 DC DC 1 1 -0.076 0.008 1.353 1.277 N 1 A A N3 C4 DC DC 1 1 -0.123 0.007 1.335 1.212 N 1 A A C4 C5 DC DC 1 1 -0.165 0.008 1.425 1.260 N 1 A A C5 C6 DC DC 1 1 -0.075 0.008 1.339 1.264 N 1 A A O3' P DC DG 1 2 -0.201 0.012 1.607 1.406 Y 1 A A P OP1 DG DG 2 2 -0.140 0.017 1.485 1.345 N 1 A A P OP2 DG DG 2 2 -0.115 0.017 1.485 1.370 N 1 A A P O5' DG DG 2 2 -0.162 0.010 1.593 1.431 N 1 A A C4 C5 DG DG 2 2 -0.043 0.007 1.379 1.336 N 1 A A C6 N1 DG DG 2 2 -0.048 0.007 1.391 1.343 N 1 A A N7 C8 DG DG 2 2 -0.039 0.006 1.305 1.266 N 1 A A N9 C4 DG DG 2 2 -0.053 0.008 1.375 1.322 N 1 A A P OP1 DC DC 3 3 -0.135 0.017 1.485 1.350 N 1 A A P OP2 DC DC 3 3 -0.188 0.017 1.485 1.297 N 1 A A P O5' DC DC 3 3 -0.161 0.010 1.593 1.432 N 1 A A C5' C4' DC DC 3 3 -0.139 0.011 1.509 1.370 N 1 A A C4' C3' DC DC 3 3 -0.068 0.010 1.521 1.453 N 1 A A C3' C2' DC DC 3 3 -0.049 0.008 1.516 1.467 N 1 A A O4' C4' DC DC 3 3 -0.077 0.010 1.446 1.369 N 1 A A O3' C3' DC DC 3 3 -0.049 0.006 1.419 1.370 N 1 A A P O5' DA DA 5 5 -0.066 0.010 1.593 1.527 N 1 A A P OP1 DA DA 7 7 -0.130 0.017 1.485 1.355 N 1 A A P O5' DA DA 7 7 -0.080 0.010 1.593 1.513 N 1 A A P OP2 DC DC 8 8 -0.107 0.017 1.485 1.378 N 1 A A O3' C3' DC DC 8 8 -0.041 0.006 1.419 1.378 N 1 A A P OP2 DC DC 10 10 -0.111 0.017 1.485 1.374 N 1 A A P O5' DC DC 10 10 -0.066 0.010 1.593 1.527 N 1 A A C3' C2' DC DC 10 10 -0.061 0.008 1.516 1.455 N 1 A A O4' C4' DC DC 10 10 -0.067 0.010 1.446 1.379 N 1 A A C3' C2' DC DC 11 11 -0.061 0.008 1.516 1.455 N 1 A A C4 N4 DC DC 11 11 -0.074 0.009 1.335 1.261 N 1 A A N1 C2 DC DC 11 11 -0.087 0.010 1.397 1.310 N 1 A A C2 N3 DC DC 11 11 -0.064 0.008 1.353 1.289 N 1 A A C4 C5 DC DC 11 11 -0.073 0.008 1.425 1.352 N 1 A A C5 C6 DC DC 11 11 -0.051 0.008 1.339 1.288 N 1 B B C5' C4' DG DG 12 12 -0.123 0.011 1.509 1.386 N 1 B B C4' C3' DG DG 12 12 -0.118 0.010 1.521 1.403 N 1 B B C3' C2' DG DG 12 12 -0.050 0.008 1.516 1.466 N 1 B B C2' C1' DG DG 12 12 -0.151 0.010 1.518 1.367 N 1 B B O4' C1' DG DG 12 12 -0.099 0.012 1.418 1.319 N 1 B B O4' C4' DG DG 12 12 -0.087 0.010 1.446 1.359 N 1 B B O3' C3' DG DG 12 12 -0.061 0.006 1.419 1.358 N 1 B B N3 C4 DG DG 12 12 -0.042 0.007 1.350 1.308 N 1 B B C4 C5 DG DG 12 12 -0.043 0.007 1.379 1.336 N 1 B B C6 N1 DG DG 12 12 -0.058 0.007 1.391 1.333 N 1 B B C5 N7 DG DG 12 12 -0.042 0.006 1.388 1.346 N 1 B B N9 C4 DG DG 12 12 -0.054 0.008 1.375 1.321 N 1 B B C2 N2 DG DG 12 12 -0.064 0.010 1.341 1.277 N 1 B B O3' P DG DG 12 13 -0.078 0.012 1.607 1.529 Y 1 B B P OP1 DG DG 13 13 -0.109 0.017 1.485 1.376 N 1 B B P OP2 DG DG 13 13 -0.130 0.017 1.485 1.355 N 1 B B N3 C4 DG DG 13 13 -0.049 0.007 1.350 1.301 N 1 B B C6 N1 DG DG 13 13 -0.064 0.007 1.391 1.327 N 1 B B C5 N7 DG DG 13 13 -0.046 0.006 1.388 1.342 N 1 B B C8 N9 DG DG 13 13 -0.046 0.007 1.374 1.328 N 1 B B C2 N2 DG DG 13 13 -0.076 0.010 1.341 1.265 N 1 B B P OP1 DC DC 14 14 -0.120 0.017 1.485 1.365 N 1 B B P OP2 DC DC 14 14 -0.128 0.017 1.485 1.357 N 1 B B P O5' DC DC 14 14 -0.074 0.010 1.593 1.519 N 1 B B O3' C3' DC DC 14 14 -0.048 0.006 1.419 1.371 N 1 B B C2 O2 DC DC 14 14 -0.062 0.009 1.240 1.178 N 1 B B N1 C6 DC DC 14 14 -0.053 0.006 1.367 1.314 N 1 B B N3 C4 DC DC 14 14 -0.057 0.007 1.335 1.278 N 1 B B O3' P DG DT 15 16 -0.099 0.012 1.607 1.508 Y 1 B B P OP1 DT DT 16 16 -0.119 0.017 1.485 1.366 N 1 B B P OP2 DT DT 16 16 -0.110 0.017 1.485 1.375 N 1 B B P O5' DT DT 16 16 -0.112 0.010 1.593 1.481 N 1 B B C3' C2' DC DC 17 17 -0.056 0.008 1.516 1.460 N 1 B B N1 C6 DC DC 17 17 -0.042 0.006 1.367 1.325 N 1 B B N3 C4 DC DC 17 17 -0.043 0.007 1.335 1.292 N 1 B B P OP1 DT DT 18 18 -0.106 0.017 1.485 1.379 N 1 B B P O5' DT DT 18 18 -0.082 0.010 1.593 1.511 N 1 B B P O5' DC DC 19 19 -0.104 0.010 1.593 1.489 N 1 B B C3' C2' DG DG 20 20 -0.084 0.008 1.516 1.432 N 1 B B C2' C1' DG DG 20 20 -0.067 0.010 1.518 1.451 N 1 B B O3' C3' DG DG 20 20 -0.037 0.006 1.419 1.382 N 1 B B P OP1 DC DC 21 21 -0.134 0.017 1.485 1.351 N 1 B B P OP2 DC DC 21 21 -0.131 0.017 1.485 1.354 N 1 B B P O5' DC DC 21 21 -0.060 0.010 1.593 1.533 N 1 B B C3' C2' DC DC 21 21 -0.068 0.008 1.516 1.448 N 1 B B C2' C1' DC DC 21 21 -0.074 0.010 1.518 1.444 N 1 B B O4' C4' DC DC 21 21 -0.083 0.010 1.446 1.363 N 1 B B O3' C3' DC DC 21 21 -0.100 0.006 1.419 1.319 N 1 B B O3' P DC DG 21 22 -0.116 0.012 1.607 1.491 Y 1 B B P OP2 DG DG 22 22 -0.106 0.017 1.485 1.379 N 1 B B C4' C3' DG DG 22 22 -0.129 0.010 1.521 1.392 N 1 B B C3' C2' DG DG 22 22 -0.221 0.008 1.516 1.295 N 1 B B C2' C1' DG DG 22 22 -0.266 0.010 1.518 1.252 N 1 B B O4' C1' DG DG 22 22 -0.125 0.012 1.418 1.293 N 1 B B O4' C4' DG DG 22 22 -0.097 0.010 1.446 1.349 N 1 B B O3' C3' DG DG 22 22 -0.300 0.006 1.419 1.119 N 1 B B C1' N9 DG DG 22 22 -0.182 0.014 1.468 1.286 N 1 B B N1 C2 DG DG 22 22 -0.178 0.008 1.373 1.195 N 1 B B C2 N3 DG DG 22 22 -0.078 0.008 1.323 1.245 N 1 B B N3 C4 DG DG 22 22 -0.102 0.007 1.350 1.248 N 1 B B C4 C5 DG DG 22 22 -0.186 0.007 1.379 1.193 N 1 B B C5 C6 DG DG 22 22 -0.086 0.010 1.419 1.333 N 1 B B C6 N1 DG DG 22 22 -0.117 0.007 1.391 1.274 N 1 B B C5 N7 DG DG 22 22 -0.068 0.006 1.388 1.320 N 1 B B N7 C8 DG DG 22 22 -0.131 0.006 1.305 1.174 N 1 B B C8 N9 DG DG 22 22 -0.152 0.007 1.374 1.222 N 1 B B N9 C4 DG DG 22 22 -0.078 0.008 1.375 1.297 N 1 B B C2 N2 DG DG 22 22 -0.112 0.010 1.341 1.229 N 1 B B C6 O6 DG DG 22 22 -0.161 0.009 1.237 1.076 N model building X-PLOR 3.1 refinement X-PLOR 3.1 phasing X-PLOR 3.1 APURINIC DNA WITH BOUND WATER AT THE DAMAGED SITE AND N3 OF CYTOSINE, BETA FORM, NMR, 1 STRUCTURE 1 N N 2 N N 3 N N covale 1.544 one A DA 5 A O3' DA 5 1_555 A AAB 6 A P AAB 6 1_555 covale 1.567 one A AAB 6 A O3' AAB 6 1_555 A DA 7 A P DA 7 1_555 hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 B DG 22 B N1 DG 11 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 B DG 22 B O6 DG 11 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 B DG 22 B N2 DG 11 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 B DC 21 B N3 DC 10 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B DC 21 B O2 DC 10 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B DC 21 B N4 DC 10 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 B DG 20 B N1 DG 9 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 B DG 20 B O6 DG 9 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 B DG 20 B N2 DG 9 1_555 hydrog WATSON-CRICK A DG 4 A N1 DG 4 1_555 B DC 19 B N3 DC 8 1_555 hydrog WATSON-CRICK A DG 4 A N2 DG 4 1_555 B DC 19 B O2 DC 8 1_555 hydrog WATSON-CRICK A DG 4 A O6 DG 4 1_555 B DC 19 B N4 DC 8 1_555 hydrog WATSON-CRICK A DA 5 A N1 DA 5 1_555 B DT 18 B N3 DT 7 1_555 hydrog WATSON-CRICK A DA 5 A N6 DA 5 1_555 B DT 18 B O4 DT 7 1_555 hydrog WATSON-CRICK A DA 7 A N1 DA 7 1_555 B DT 16 B N3 DT 5 1_555 hydrog WATSON-CRICK A DA 7 A N6 DA 7 1_555 B DT 16 B O4 DT 5 1_555 hydrog WATSON-CRICK A DC 8 A N3 DC 8 1_555 B DG 15 B N1 DG 4 1_555 hydrog WATSON-CRICK A DC 8 A N4 DC 8 1_555 B DG 15 B O6 DG 4 1_555 hydrog WATSON-CRICK A DC 8 A O2 DC 8 1_555 B DG 15 B N2 DG 4 1_555 hydrog WATSON-CRICK A DG 9 A N1 DG 9 1_555 B DC 14 B N3 DC 3 1_555 hydrog WATSON-CRICK A DG 9 A N2 DG 9 1_555 B DC 14 B O2 DC 3 1_555 hydrog WATSON-CRICK A DG 9 A O6 DG 9 1_555 B DC 14 B N4 DC 3 1_555 hydrog WATSON-CRICK A DC 10 A N3 DC 10 1_555 B DG 13 B N1 DG 2 1_555 hydrog WATSON-CRICK A DC 10 A N4 DC 10 1_555 B DG 13 B O6 DG 2 1_555 hydrog WATSON-CRICK A DC 10 A O2 DC 10 1_555 B DG 13 B N2 DG 2 1_555 hydrog WATSON-CRICK A DC 11 A N3 DC 11 1_555 B DG 12 B N1 DG 1 1_555 hydrog WATSON-CRICK A DC 11 A N4 DC 11 1_555 B DG 12 B O6 DG 1 1_555 hydrog WATSON-CRICK A DC 11 A O2 DC 11 1_555 B DG 12 B N2 DG 1 1_555 DNA DAMAGED DNA, APURINIC DNA, WATER, DNA 1A9G PDB 1 1A9G 1A9G PDB 2 1A9G 1 11 1A9G 1 11 1A9G A 1 1 11 12 22 1A9G 12 22 1A9G B 2 1 11 1 P 1