0.040584 0.000000 0.000000 0.000000 0.024625 0.000000 0.000000 0.000000 0.015368 0.00000 0.00000 0.00000 Brown, D.G. Sanderson, M.R. Garman, E. Neidle, S. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 24.640 40.610 65.070 C14 H15 N7 281.316 BERENIL DIMINAZINE ACETURATE; 1,3-TRIS-(4'AMIDINOPHENYL)TRIAZINE non-polymer 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 Mg 2 24.305 MAGNESIUM ION non-polymer Y 1 N C Y 2 N C Y 3 N C Y 4 N C Y 5 N C Y 6 N C N 7 N C N 8 N N N 9 N N N 10 N N N 11 N N N 12 N N Y 13 N C Y 14 N C Y 15 N C Y 16 N C Y 17 N C Y 18 N C N 19 N C N 20 N N N 21 N N N 22 N H 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 Y 49 N N Y 50 N C Y 51 N N Y 52 N C Y 53 N C N 54 N N Y 55 N N Y 56 N C Y 57 N N Y 58 N C 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 H N 72 N H N 73 N O N 74 N P N 75 N O N 76 N O N 77 N O N 78 N C N 79 R C N 80 N O N 81 S C N 82 N O N 83 N C N 84 R C N 85 N N N 86 N C N 87 N O N 88 N N N 89 N C N 90 N N N 91 N C N 92 N C N 93 N H 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 O N 108 N P N 109 N O N 110 N O N 111 N O N 112 N C N 113 R C N 114 N O N 115 S C N 116 N O N 117 N C N 118 R C Y 119 N N Y 120 N C Y 121 N N Y 122 N C N 123 N C N 124 N O N 125 N N N 126 N C N 127 N N N 128 N N Y 129 N C 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 P N 146 N O N 147 N O N 148 N O N 149 N C N 150 R C N 151 N O N 152 S C N 153 N O N 154 N C N 155 R C N 156 N N N 157 N C N 158 N O N 159 N N N 160 N C N 161 N O N 162 N C N 163 N C N 164 N C N 165 N H N 166 N H N 167 N H 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 O N 181 N H N 182 N H N 183 N MG Y 1 N doub Y 2 N sing N 3 N sing Y 4 N sing N 5 N sing Y 6 N doub N 7 N sing Y 8 N sing N 9 N sing Y 10 N doub N 11 N sing N 12 N sing N 13 N doub 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 E doub N 21 N sing Y 22 N doub Y 23 N sing Y 24 N sing N 25 N sing Y 26 N doub N 27 N sing Y 28 N sing N 29 N sing Y 30 N doub N 31 N sing N 32 N sing N 33 N doub 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 doub 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 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 Y 61 N sing Y 62 N sing Y 63 N doub N 64 N sing Y 65 N sing Y 66 N sing Y 67 N doub N 68 N sing Y 69 N doub N 70 N sing N 71 N sing Y 72 N sing Y 73 N doub N 74 N sing Y 75 N sing N 76 N sing N 77 N sing N 78 N doub 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 N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N doub N 102 N sing N 103 N doub N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N doub N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N doub 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 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 Y 134 N sing Y 135 N sing Y 136 N doub N 137 N sing Y 138 N sing N 139 N sing Y 140 N doub N 141 N doub N 142 N sing N 143 N sing N 144 N sing N 145 N sing N 146 N doub N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N doub 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 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 doub N 176 N sing N 177 N sing N 178 N sing N 179 N doub N 180 N sing N 181 N sing N 182 N doub N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N sing N 188 N sing UK J.Mol.Biol. JMOBAK 0070 0022-2836 226 481 490 10.1016/0022-2836(92)90962-J 1640462 Crystal structure of a berenil-d(CGCAAATTTGCG) complex. An example of drug-DNA recognition based on sequence-dependent structural features. 1992 UK Embo J. EMJODG 0897 0261-4189 9 1329 1334 Crystal Structure of a Berenil-Dodecanucleotide Complex: The Role of Water in Sequence-Specific Ligand Binding 1990 10.2210/pdb1d63/pdb pdb_00001d63 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 291.00 1 AREA DETECTOR XENTRONICS x-ray 1 1.0 ROTATING ANODE RIGAKU RU200 3662.404 DNA (5'-D(*CP*GP*CP*AP*AP*AP*TP*TP*TP*GP*CP*G)-3') 2 syn polymer 24.305 MAGNESIUM ION 1 syn non-polymer 281.316 BERENIL 1 syn non-polymer 18.015 water 65 nat water no no (DC)(DG)(DC)(DA)(DA)(DA)(DT)(DT)(DT)(DG)(DC)(DG) CGCAAATTTGCG A,B polydeoxyribonucleotide n n n n n n n n n n n n 2.22 44.65 VAPOR DIFFUSION, HANGING DROP 7.00 pH 7.00, VAPOR DIFFUSION, HANGING DROP ROOM TEMPERATURE WATER 1 MPD 1 MGCL2 1 NA CACODYLATE 1 AZIDE 1 WATER 2 MPD 2 6.727 1 19 A 1 B 24 -0.903 A_DC1:DG24_B 1 -12.201 0.138 -0.142 -0.127 0.535 1 19 A 2 B 23 -3.691 A_DG2:DC23_B 2 -12.462 -0.223 0.248 -0.196 -5.475 1 19 A 3 B 22 0.505 A_DC3:DG22_B 3 -7.477 -0.215 0.279 -0.059 10.114 1 20 A 4 B 21 0.377 A_DA4:DT21_B 4 -12.592 -0.245 -0.139 -0.130 11.099 1 20 A 5 B 20 0.709 A_DA5:DT20_B 5 -22.653 0.167 -0.096 -0.095 5.412 1 20 A 6 B 19 2.006 A_DA6:DT19_B 6 -18.310 0.116 0.328 -0.137 -0.972 1 20 A 7 B 18 0.360 A_DT7:DA18_B 7 -18.450 -0.098 0.147 -0.096 -8.982 1 20 A 8 B 17 -3.099 A_DT8:DA17_B 8 -18.084 -0.166 0.177 -0.088 -9.769 1 20 A 9 B 16 -3.461 A_DT9:DA16_B 9 -12.111 -0.103 0.044 -0.038 8.007 1 19 A 10 B 15 0.345 A_DG10:DC15_B 10 -5.137 -0.081 0.018 -0.076 3.967 1 19 A 11 B 14 -4.154 A_DC11:DG14_B 11 -21.588 0.005 0.420 -0.181 7.707 1 19 A 12 B 13 -3.391 A_DG12:DC13_B 12 11.556 -0.146 -0.048 -0.152 3.540 36.607 A A 1 2 6.114 B B 24 23 3.531 3.832 0.041 0.315 AA_DC1DG2:DC23DG24_BB 1 -1.564 2.495 36.380 -0.070 -0.298 3.510 38.671 A A 2 3 -5.977 B B 23 22 3.518 -3.950 0.597 0.152 AA_DG2DC3:DG22DC23_BB 2 1.856 -2.809 38.433 0.752 -0.655 3.094 29.007 A A 3 4 11.696 B B 22 21 3.083 5.797 -0.146 0.660 AA_DC3DA4:DT21DG22_BB 3 4.525 -9.130 28.079 0.092 1.248 3.323 37.608 A A 4 5 3.507 B B 21 20 3.316 2.259 0.011 0.223 AA_DA4DA5:DT20DT21_BB 4 0.499 -0.775 37.539 0.047 0.048 3.153 38.287 A A 5 6 5.593 B B 20 19 3.252 3.655 0.239 -0.361 AA_DA5DA6:DT19DT20_BB 5 -4.708 7.206 37.838 -1.002 -0.947 3.374 30.164 A A 6 7 3.859 B B 19 18 3.452 2.006 -0.163 -0.902 AA_DA6DT7:DA18DT19_BB 6 1.547 -2.975 30.060 -2.161 0.642 3.415 38.495 A A 7 8 2.391 B B 18 17 3.426 1.576 -0.333 -0.200 AA_DT7DT8:DA17DA18_BB 7 0.134 -0.203 38.464 -0.508 0.523 3.267 35.970 A A 8 9 -6.643 B B 17 16 3.299 -4.091 -0.005 0.050 AA_DT8DT9:DA16DA17_BB 8 2.191 -3.557 35.679 0.668 0.323 3.152 32.778 A A 9 10 1.433 B B 16 15 3.106 0.808 0.658 1.391 AA_DT9DG10:DC15DA16_BB 9 0.730 -1.294 32.761 2.332 -1.046 3.384 42.031 A A 10 11 -12.014 B B 15 14 3.491 -8.548 -0.981 0.624 AA_DG10DC11:DG14DC15_BB 10 -4.399 6.183 40.966 1.814 0.882 3.369 38.923 A A 11 12 -9.588 B B 14 13 3.451 -6.350 0.709 0.602 AA_DC11DG12:DC13DG14_BB 11 4.280 -6.462 38.191 1.715 -0.517 chem_comp_atom chem_comp_bond database_2 pdbx_struct_conn_angle struct_conn struct_site repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 1993-01-15 1 1 2008-05-22 1 2 2011-07-13 1 3 2024-02-07 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_symmetry _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id BNL Y NDB 1992-03-02 REL REL MG MAGNESIUM ION BRN BERENIL HOH water MG 26 2 MG MG 26 A BRN 25 3 BRN BRN 25 B HOH 28 4 HOH HOH 28 A HOH 29 4 HOH HOH 29 A HOH 31 4 HOH HOH 31 A HOH 35 4 HOH HOH 35 A HOH 36 4 HOH HOH 36 A HOH 37 4 HOH HOH 37 A HOH 41 4 HOH HOH 41 A HOH 42 4 HOH HOH 42 A HOH 45 4 HOH HOH 45 A HOH 47 4 HOH HOH 47 A HOH 49 4 HOH HOH 49 A HOH 53 4 HOH HOH 53 A HOH 54 4 HOH HOH 54 A HOH 55 4 HOH HOH 55 A HOH 57 4 HOH HOH 57 A HOH 58 4 HOH HOH 58 A HOH 59 4 HOH HOH 59 A HOH 63 4 HOH HOH 63 A HOH 64 4 HOH HOH 64 A HOH 65 4 HOH HOH 65 A HOH 66 4 HOH HOH 66 A HOH 68 4 HOH HOH 68 A HOH 71 4 HOH HOH 71 A HOH 72 4 HOH HOH 72 A HOH 75 4 HOH HOH 75 A HOH 77 4 HOH HOH 77 A HOH 79 4 HOH HOH 79 A HOH 80 4 HOH HOH 80 A HOH 84 4 HOH HOH 84 A HOH 86 4 HOH HOH 86 A HOH 87 4 HOH HOH 87 A HOH 88 4 HOH HOH 88 A HOH 89 4 HOH HOH 89 A HOH 91 4 HOH HOH 91 A HOH 27 4 HOH HOH 27 B HOH 30 4 HOH HOH 30 B HOH 32 4 HOH HOH 32 B HOH 33 4 HOH HOH 33 B HOH 34 4 HOH HOH 34 B HOH 38 4 HOH HOH 38 B HOH 39 4 HOH HOH 39 B HOH 40 4 HOH HOH 40 B HOH 43 4 HOH HOH 43 B HOH 44 4 HOH HOH 44 B HOH 46 4 HOH HOH 46 B HOH 48 4 HOH HOH 48 B HOH 50 4 HOH HOH 50 B HOH 51 4 HOH HOH 51 B HOH 52 4 HOH HOH 52 B HOH 56 4 HOH HOH 56 B HOH 60 4 HOH HOH 60 B HOH 61 4 HOH HOH 61 B HOH 62 4 HOH HOH 62 B HOH 67 4 HOH HOH 67 B HOH 69 4 HOH HOH 69 B HOH 70 4 HOH HOH 70 B HOH 73 4 HOH HOH 73 B HOH 74 4 HOH HOH 74 B HOH 76 4 HOH HOH 76 B HOH 78 4 HOH HOH 78 B HOH 81 4 HOH HOH 81 B HOH 82 4 HOH HOH 82 B HOH 83 4 HOH HOH 83 B HOH 85 4 HOH HOH 85 B HOH 90 4 HOH HOH 90 B 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 A 5 n 5 DA 5 A A 6 n 6 DA 6 A T 7 n 7 DT 7 A T 8 n 8 DT 8 A T 9 n 9 DT 9 A G 10 n 10 DG 10 A C 11 n 11 DC 11 A G 12 n 12 DG 12 A C 13 n 1 DC 13 B G 14 n 2 DG 14 B C 15 n 3 DC 15 B A 16 n 4 DA 16 B A 17 n 5 DA 17 B A 18 n 6 DA 18 B T 19 n 7 DT 19 B T 20 n 8 DT 20 B T 21 n 9 DT 21 B G 22 n 10 DG 22 B C 23 n 11 DC 23 B G 24 n 12 DG 24 B author_defined_assembly 2 dimeric A HOH 41 E O HOH 3_657 A MG 26 C MG MG 1_555 A HOH 54 E O HOH 1_555 69.3 A HOH 41 E O HOH 3_657 A MG 26 C MG MG 1_555 A HOH 55 E O HOH 1_555 170.6 A HOH 54 E O HOH 1_555 A MG 26 C MG MG 1_555 A HOH 55 E O HOH 1_555 117.4 A HOH 41 E O HOH 3_657 A MG 26 C MG MG 1_555 A HOH 66 E O HOH 3_657 78.4 A HOH 54 E O HOH 1_555 A MG 26 C MG MG 1_555 A HOH 66 E O HOH 3_657 81.6 A HOH 55 E O HOH 1_555 A MG 26 C MG MG 1_555 A HOH 66 E O HOH 3_657 95.6 A HOH 41 E O HOH 3_657 A MG 26 C MG MG 1_555 B HOH 83 F O HOH 1_555 81.1 A HOH 54 E O HOH 1_555 A MG 26 C MG MG 1_555 B HOH 83 F O HOH 1_555 147.7 A HOH 55 E O HOH 1_555 A MG 26 C MG MG 1_555 B HOH 83 F O HOH 1_555 90.8 A HOH 66 E O HOH 3_657 A MG 26 C MG MG 1_555 B HOH 83 F O HOH 1_555 80.2 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 -2.50 0.40 121.90 119.40 A A A N3 C4 C5 DC DC DC 1 1 1 N 1 3.87 0.30 108.30 112.17 A A A O4' C1' N9 DG DG DG 2 2 2 N 1 11.99 1.20 119.70 131.69 A A A C3' O3' P DG DG DC 2 2 3 Y 1 2.49 0.30 108.30 110.79 A A A O4' C1' N9 DA DA DA 4 4 4 N 1 4.79 0.60 118.60 123.39 A A A C6 N1 C2 DA DA DA 4 4 4 N 1 -3.98 0.50 129.30 125.32 A A A N1 C2 N3 DA DA DA 4 4 4 N 1 -3.87 0.50 117.70 113.83 A A A C5 C6 N1 DA DA DA 4 4 4 N 1 -7.96 0.80 109.40 101.44 A A A O5' C5' C4' DA DA DA 5 5 5 N 1 -9.99 1.60 120.90 110.91 A A A P O5' C5' DA DA DA 5 5 5 N 1 3.80 0.60 118.60 122.40 A A A C6 N1 C2 DA DA DA 5 5 5 N 1 -4.92 0.50 129.30 124.38 A A A N1 C2 N3 DA DA DA 5 5 5 N 1 11.84 1.20 119.70 131.54 A A A C3' O3' P DA DA DA 5 5 6 Y 1 -6.58 0.80 109.40 102.82 A A A O5' C5' C4' DA DA DA 6 6 6 N 1 1.92 0.30 108.30 110.22 A A A O4' C1' N9 DA DA DA 6 6 6 N 1 4.37 0.60 118.60 122.97 A A A C6 N1 C2 DA DA DA 6 6 6 N 1 -4.16 0.50 129.30 125.14 A A A N1 C2 N3 DA DA DA 6 6 6 N 1 -3.47 0.50 117.70 114.23 A A A C5 C6 N1 DA DA DA 6 6 6 N 1 4.92 0.80 123.70 128.62 A A A C5 C6 N6 DA DA DA 6 6 6 N 1 13.00 1.20 119.70 132.70 A A A C3' O3' P DA DA DT 6 6 7 Y 1 11.00 1.20 119.70 130.70 A A A C3' O3' P DT DT DT 7 7 8 Y 1 -5.75 0.80 109.40 103.65 A A A O5' C5' C4' DT DT DT 8 8 8 N 1 -3.71 0.60 127.20 123.49 A A A C2 N3 C4 DT DT DT 8 8 8 N 1 -7.71 0.80 109.40 101.69 A A A O5' C5' C4' DT DT DT 9 9 9 N 1 -5.20 0.60 127.20 122.00 A A A C2 N3 C4 DT DT DT 9 9 9 N 1 4.46 0.60 115.20 119.66 A A A N3 C4 C5 DT DT DT 9 9 9 N 1 11.61 1.20 119.70 131.31 A A A C3' O3' P DT DT DG 9 9 10 Y 1 -5.85 0.80 109.40 103.55 A A A O5' C5' C4' DG DG DG 10 10 10 N 1 -8.32 0.80 102.40 94.08 A A A C3' C2' C1' DG DG DG 10 10 10 N 1 2.38 0.30 108.30 110.68 A A A O4' C1' N9 DG DG DG 10 10 10 N 1 -4.14 0.60 125.10 120.96 A A A C6 N1 C2 DG DG DG 10 10 10 N 1 3.93 0.50 111.50 115.43 A A A C5 C6 N1 DG DG DG 10 10 10 N 1 -4.90 0.80 109.40 104.50 A A A O5' C5' C4' DC DC DC 11 11 11 N 1 -5.43 0.80 102.40 96.97 B B B C3' C2' C1' DC DC DC 13 13 13 N 1 -5.13 0.80 109.40 104.27 B B B O5' C5' C4' DA DA DA 16 16 16 N 1 -5.56 0.80 109.40 103.84 B B B O5' C5' C4' DA DA DA 17 17 17 N 1 -10.34 1.60 120.90 110.56 B B B P O5' C5' DA DA DA 17 17 17 N 1 2.51 0.30 108.30 110.81 B B B O4' C1' N9 DA DA DA 17 17 17 N 1 3.76 0.60 118.60 122.36 B B B C6 N1 C2 DA DA DA 17 17 17 N 1 -3.55 0.50 129.30 125.75 B B B N1 C2 N3 DA DA DA 17 17 17 N 1 -5.43 0.80 109.40 103.97 B B B O5' C5' C4' DA DA DA 18 18 18 N 1 3.10 0.30 108.30 111.40 B B B O4' C1' N9 DA DA DA 18 18 18 N 1 5.01 0.60 118.60 123.61 B B B C6 N1 C2 DA DA DA 18 18 18 N 1 -4.01 0.50 129.30 125.29 B B B N1 C2 N3 DA DA DA 18 18 18 N 1 -3.90 0.50 117.70 113.80 B B B C5 C6 N1 DA DA DA 18 18 18 N 1 8.43 1.20 119.70 128.13 B B B C3' O3' P DA DA DT 18 18 19 Y 1 -7.39 0.80 109.40 102.01 B B B O5' C5' C4' DT DT DT 19 19 19 N 1 -12.00 1.60 120.90 108.90 B B B P O5' C5' DT DT DT 19 19 19 N 1 1.83 0.30 108.30 110.13 B B B O4' C1' N1 DT DT DT 19 19 19 N 1 11.66 1.20 119.70 131.36 B B B C3' O3' P DT DT DT 19 19 20 Y 1 8.74 1.20 119.70 128.44 B B B C3' O3' P DT DT DT 20 20 21 Y 1 -7.37 0.80 109.40 102.03 B B B O5' C5' C4' DT DT DT 21 21 21 N 1 -5.49 0.70 108.00 102.51 B B B O4' C1' N1 DT DT DT 21 21 21 N 1 -5.30 0.60 127.20 121.90 B B B C2 N3 C4 DT DT DT 21 21 21 N 1 4.16 0.60 115.20 119.36 B B B N3 C4 C5 DT DT DT 21 21 21 N 1 -5.82 0.80 102.40 96.58 B B B C3' C2' C1' DG DG DG 22 22 22 N 1 5.26 0.30 108.30 113.56 B B B O4' C1' N9 DG DG DG 22 22 22 N 1 -5.92 0.80 109.40 103.48 B B B O5' C5' C4' DC DC DC 23 23 23 N 1 -5.00 0.80 109.40 104.40 B B B O5' C5' C4' DG DG DG 24 24 24 N 1 2.08 0.30 108.30 110.38 B B B O4' C1' N9 DG DG DG 24 24 24 N 1 3.03 0.50 111.50 114.53 B B B C5 C6 N1 DG DG DG 24 24 24 N 1 A A O3' P DA DT 6 7 -0.083 0.012 1.607 1.524 Y 1 A A O4' C1' DT DT 8 8 0.070 0.011 1.420 1.490 N 1 B B OP2 O DG HOH 24 61 1.66 1_555 2_665 1 A A C5' O DC HOH 1 64 1.93 1_555 3_657 1 A A O O HOH HOH 86 91 1.97 1_555 2_664 1 A B O O HOH HOH 45 70 2.04 1_555 2_564 1 A B O O HOH HOH 57 46 2.09 1_555 2_665 0.1830000 2.000 7.000 3106 1 2.000 TR isotropic TR isotropic TR isotropic 2.000 7.000 65 573 22 486 0 0.011 0.026 0.032 0.032 fix fix fix 2.000 1D63 12415 4067 0.0620000 1 refinement NUCLSQ CRYSTAL STRUCTURE OF A BERENIL-D(CGCAAATTTGCG) COMPLEX; AN EXAMPLE OF DRUG-DNA RECOGNITION BASED ON SEQUENCE-DEPENDENT STRUCTURAL FEATURES 1 N N 1 N N 2 N N 3 N N 4 N N 4 N N metalc 1.984 A MG 26 C MG MG 1_555 A HOH 41 E O HOH 3_657 metalc 1.906 A MG 26 C MG MG 1_555 A HOH 54 E O HOH 1_555 metalc 1.985 A MG 26 C MG MG 1_555 A HOH 55 E O HOH 1_555 metalc 2.290 A MG 26 C MG MG 1_555 A HOH 66 E O HOH 3_657 metalc 2.330 A MG 26 C MG MG 1_555 B HOH 83 F O HOH 1_555 hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 B DG 24 B N1 DG 12 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 B DG 24 B O6 DG 12 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 B DG 24 B N2 DG 12 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 B DC 23 B N3 DC 11 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B DC 23 B O2 DC 11 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B DC 23 B N4 DC 11 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 B DG 22 B N1 DG 10 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 B DG 22 B O6 DG 10 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 B DG 22 B N2 DG 10 1_555 hydrog WATSON-CRICK A DA 4 A N1 DA 4 1_555 B DT 21 B N3 DT 9 1_555 hydrog WATSON-CRICK A DA 4 A N6 DA 4 1_555 B DT 21 B O4 DT 9 1_555 hydrog WATSON-CRICK A DA 5 A N1 DA 5 1_555 B DT 20 B N3 DT 8 1_555 hydrog WATSON-CRICK A DA 5 A N6 DA 5 1_555 B DT 20 B O4 DT 8 1_555 hydrog WATSON-CRICK A DA 6 A N1 DA 6 1_555 B DT 19 B N3 DT 7 1_555 hydrog WATSON-CRICK A DA 6 A N6 DA 6 1_555 B DT 19 B O4 DT 7 1_555 hydrog WATSON-CRICK A DT 7 A N3 DT 7 1_555 B DA 18 B N1 DA 6 1_555 hydrog WATSON-CRICK A DT 7 A O4 DT 7 1_555 B DA 18 B N6 DA 6 1_555 hydrog WATSON-CRICK A DT 8 A N3 DT 8 1_555 B DA 17 B N1 DA 5 1_555 hydrog WATSON-CRICK A DT 8 A O4 DT 8 1_555 B DA 17 B N6 DA 5 1_555 hydrog WATSON-CRICK A DT 9 A N3 DT 9 1_555 B DA 16 B N1 DA 4 1_555 hydrog WATSON-CRICK A DT 9 A O4 DT 9 1_555 B DA 16 B N6 DA 4 1_555 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 B DC 15 B N3 DC 3 1_555 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 B DC 15 B O2 DC 3 1_555 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 B DC 15 B N4 DC 3 1_555 hydrog WATSON-CRICK A DC 11 A N3 DC 11 1_555 B DG 14 B N1 DG 2 1_555 hydrog WATSON-CRICK A DC 11 A N4 DC 11 1_555 B DG 14 B O6 DG 2 1_555 hydrog WATSON-CRICK A DC 11 A O2 DC 11 1_555 B DG 14 B N2 DG 2 1_555 hydrog WATSON-CRICK A DG 12 A N1 DG 12 1_555 B DC 13 B N3 DC 1 1_555 hydrog WATSON-CRICK A DG 12 A N2 DG 12 1_555 B DC 13 B O2 DC 1 1_555 hydrog WATSON-CRICK A DG 12 A O6 DG 12 1_555 B DC 13 B N4 DC 1 1_555 DNA B-DNA, DOUBLE HELIX, COMPLEXED WITH DRUG, DNA 1D63 PDB 1 1D63 1 12 1D63 1 12 1D63 A 1 1 12 13 24 1D63 13 24 1D63 B 1 1 12 BINDING SITE FOR RESIDUE BRN B 25 B BRN 25 Software 9 BINDING SITE FOR RESIDUE MG A 26 A MG 26 Software 5 A DA 6 A DA 6 9 1_555 A DT 7 A DT 7 9 1_555 A DT 8 A DT 8 9 1_555 A DT 9 A DT 9 9 1_555 B DA 18 B DA 6 9 1_555 B DT 19 B DT 7 9 1_555 B DT 20 B DT 8 9 1_555 B DT 21 B DT 9 9 1_555 B HOH 67 F HOH 9 1_555 A HOH 41 E HOH 5 3_657 A HOH 54 E HOH 5 1_555 A HOH 55 E HOH 5 1_555 A HOH 66 E HOH 5 3_657 B HOH 83 F HOH 5 1_555 19 P 21 21 21