0.039635 0.000000 0.000000 0.000000 0.024643 0.000000 0.000000 0.000000 0.015133 0.00000 0.00000 0.00000 NO DISORDERED DRUG Teng, M.-K. Usman, N. Frederick, C.A. Wang, A.H.-J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 25.230 40.580 66.080 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 C25 H24 N6 O 424.498 2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE HOECHST 33258 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 147 N O Y 148 N C Y 149 N C Y 150 N C Y 151 N C Y 152 N C Y 153 N C Y 154 N C Y 155 N N Y 156 N C Y 157 N C Y 158 N N Y 159 N C Y 160 N C Y 161 N C Y 162 N C Y 163 N C Y 164 N N Y 165 N C Y 166 N C Y 167 N N Y 168 N C Y 169 N C Y 170 N C Y 171 N C N 172 N N N 173 N C N 174 N C N 175 N N N 176 N C N 177 N C N 178 N C N 179 N H N 180 N H N 181 N H N 182 N H N 183 N H N 184 N H N 185 N H N 186 N H N 187 N H N 188 N H N 189 N H N 190 N H N 191 N H N 192 N H N 193 N H N 194 N H N 195 N H N 196 N H N 197 N H N 198 N H N 199 N H N 200 N H N 201 N H N 202 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 N 152 N sing N 153 N sing Y 154 N doub Y 155 N sing Y 156 N sing N 157 N sing Y 158 N doub N 159 N sing Y 160 N sing Y 161 N sing Y 162 N doub N 163 N sing N 164 N sing Y 165 N sing Y 166 N doub Y 167 N sing N 168 N sing Y 169 N doub Y 170 N sing Y 171 N sing Y 172 N sing Y 173 N doub N 174 N sing Y 175 N sing N 176 N sing Y 177 N doub Y 178 N sing N 179 N sing Y 180 N sing Y 181 N doub Y 182 N sing N 183 N sing Y 184 N doub Y 185 N sing Y 186 N sing Y 187 N sing Y 188 N doub N 189 N sing Y 190 N sing N 191 N sing Y 192 N doub N 193 N sing N 194 N sing N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N sing N 212 N sing UK Nucleic Acids Res. NARHAD 0389 0305-1048 16 2671 2690 10.1093/nar/16.6.2671 2452403 The molecular structure of the complex of Hoechst 33258 and the DNA dodecamer d(CGCGAATTCGCG). 1988 10.2210/pdb1dnh/pdb pdb_00001dnh 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 288.00 1 DIFFRACTOMETER NICOLET P3 x-ray 1 1.0 3663.392 DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3') 2 syn polymer 424.498 2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE 1 syn non-polymer 18.015 water 126 nat water no no (DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(DC)(DG)(DC)(DG) CGCGAATTCGCG A,B polydeoxyribonucleotide n n n n n n n n n n n n 2.31 46.72 VAPOR DIFFUSION VAPOR DIFFUSION ROOM TEMPERATURE WATER 1 MPD 1 NA CACODYLATE 1 SPERMINE 1 WATER 2 MPD 2 15.671 1 19 A 1 B 24 1.788 A_DC1:DG24_B 1 -1.926 -0.451 -0.212 -0.064 1.971 1 19 A 2 B 23 -2.138 A_DG2:DC23_B 2 -9.919 -0.292 0.395 -0.158 -3.202 1 19 A 3 B 22 -8.117 A_DC3:DG22_B 3 -8.110 -0.222 0.241 -0.354 7.637 1 19 A 4 B 21 -5.889 A_DG4:DC21_B 4 -2.984 -0.339 -0.091 -0.416 4.521 1 20 A 5 B 20 0.916 A_DA5:DT20_B 5 -9.383 -0.158 0.006 -0.215 -2.431 1 20 A 6 B 19 -1.882 A_DA6:DT19_B 6 -27.971 0.908 -0.229 -0.242 9.997 1 20 A 7 B 18 -3.146 A_DT7:DA18_B 7 -16.544 -0.203 -0.866 -0.249 -12.082 1 20 A 8 B 17 5.500 A_DT8:DA17_B 8 -6.287 0.869 -0.377 -0.295 -10.315 1 19 A 9 B 16 -1.656 A_DC9:DG16_B 9 -8.325 -0.111 -0.199 -0.262 5.380 1 19 A 10 B 15 4.702 A_DG10:DC15_B 10 -7.226 0.035 -0.022 -0.195 -0.234 1 19 A 11 B 14 -4.665 A_DC11:DG14_B 11 -20.574 0.486 0.672 -0.400 -7.376 1 19 A 12 B 13 -5.790 A_DG12:DC13_B 12 -6.978 -0.716 -0.294 -0.603 3.666 42.482 A A 1 2 1.067 B B 24 23 3.654 0.771 -0.246 0.450 AA_DC1DG2:DC23DG24_BB 1 -4.991 6.902 42.194 0.533 -0.229 3.675 36.969 A A 2 3 -4.965 B B 23 22 3.706 -3.137 0.310 0.352 AA_DG2DC3:DG22DC23_BB 2 4.687 -7.418 36.552 1.035 0.228 3.299 32.390 A A 3 4 6.070 B B 22 21 3.255 3.379 -0.192 0.747 AA_DC3DG4:DC21DG22_BB 3 1.768 -3.177 32.170 0.741 0.657 3.289 31.812 A A 4 5 9.229 B B 21 20 3.389 5.038 -0.048 -0.383 AA_DG4DA5:DT20DC21_BB 4 -0.139 0.254 31.420 -1.645 0.061 3.441 47.214 A A 5 6 2.359 B B 20 19 3.449 1.889 -0.317 -0.033 AA_DA5DA6:DT19DT20_BB 5 0.701 -0.875 47.173 -0.204 0.456 2.865 25.165 A A 6 7 0.166 B B 19 18 2.822 0.072 0.511 -0.733 AA_DA6DT7:DA18DT19_BB 6 5.265 -12.171 24.617 -1.700 0.185 4.000 42.146 A A 7 8 6.597 B B 18 17 4.033 4.735 -0.025 -0.089 AA_DT7DT8:DA17DA18_BB 7 -0.988 1.377 41.880 -0.725 -0.091 2.997 34.388 A A 8 9 9.814 B B 17 16 3.031 5.777 0.102 0.041 AA_DT8DC9:DG16DA17_BB 8 0.071 -0.120 33.914 -0.768 -0.162 3.092 33.625 A A 9 10 -1.434 B B 16 15 3.196 -0.828 0.401 1.875 AA_DC9DG10:DC15DG16_BB 9 -3.598 6.231 33.428 3.371 -1.260 3.682 41.272 A A 10 11 -16.488 B B 15 14 3.772 -11.410 -1.228 0.435 AA_DG10DC11:DG14DC15_BB 10 -8.115 11.726 38.922 2.061 0.715 3.486 33.859 A A 11 12 9.551 B B 14 13 3.568 5.426 0.337 0.416 AA_DC11DG12:DC13DG14_BB 11 11.883 -20.917 31.306 -0.269 1.573 chem_comp_atom chem_comp_bond database_2 struct_site repository Initial release Version format compliance Version format compliance Atomic model Derived calculations Data collection Database references Derived calculations 1 0 1989-01-09 1 1 2008-05-22 1 2 2011-07-13 1 3 2011-08-24 1 4 2024-02-07 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id BNL Y BNL 1988-02-16 REL REL HT 2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE HOH water HT 25 2 HT HT 25 B HOH 26 3 HOH HOH 26 A HOH 29 3 HOH HOH 29 A HOH 31 3 HOH HOH 31 A HOH 32 3 HOH HOH 32 A HOH 36 3 HOH HOH 36 A HOH 37 3 HOH HOH 37 A HOH 39 3 HOH HOH 39 A HOH 40 3 HOH HOH 40 A HOH 41 3 HOH HOH 41 A HOH 43 3 HOH HOH 43 A HOH 45 3 HOH HOH 45 A HOH 47 3 HOH HOH 47 A HOH 49 3 HOH HOH 49 A HOH 50 3 HOH HOH 50 A HOH 51 3 HOH HOH 51 A HOH 54 3 HOH HOH 54 A HOH 56 3 HOH HOH 56 A HOH 58 3 HOH HOH 58 A HOH 61 3 HOH HOH 61 A HOH 65 3 HOH HOH 65 A HOH 67 3 HOH HOH 67 A HOH 68 3 HOH HOH 68 A HOH 72 3 HOH HOH 72 A HOH 76 3 HOH HOH 76 A HOH 77 3 HOH HOH 77 A HOH 80 3 HOH HOH 80 A HOH 81 3 HOH HOH 81 A HOH 83 3 HOH HOH 83 A HOH 84 3 HOH HOH 84 A HOH 85 3 HOH HOH 85 A HOH 89 3 HOH HOH 89 A HOH 90 3 HOH HOH 90 A HOH 91 3 HOH HOH 91 A HOH 93 3 HOH HOH 93 A HOH 94 3 HOH HOH 94 A HOH 100 3 HOH HOH 100 A HOH 106 3 HOH HOH 106 A HOH 111 3 HOH HOH 111 A HOH 115 3 HOH HOH 115 A HOH 116 3 HOH HOH 116 A HOH 119 3 HOH HOH 119 A HOH 120 3 HOH HOH 120 A HOH 122 3 HOH HOH 122 A HOH 123 3 HOH HOH 123 A HOH 126 3 HOH HOH 126 A HOH 127 3 HOH HOH 127 A HOH 128 3 HOH HOH 128 A HOH 132 3 HOH HOH 132 A HOH 133 3 HOH HOH 133 A HOH 134 3 HOH HOH 134 A HOH 136 3 HOH HOH 136 A HOH 139 3 HOH HOH 139 A HOH 140 3 HOH HOH 140 A HOH 142 3 HOH HOH 142 A HOH 143 3 HOH HOH 143 A HOH 144 3 HOH HOH 144 A HOH 147 3 HOH HOH 147 A HOH 148 3 HOH HOH 148 A HOH 150 3 HOH HOH 150 A HOH 151 3 HOH HOH 151 A HOH 27 3 HOH HOH 27 B HOH 28 3 HOH HOH 28 B HOH 30 3 HOH HOH 30 B HOH 33 3 HOH HOH 33 B HOH 34 3 HOH HOH 34 B HOH 35 3 HOH HOH 35 B HOH 38 3 HOH HOH 38 B HOH 42 3 HOH HOH 42 B HOH 44 3 HOH HOH 44 B HOH 46 3 HOH HOH 46 B HOH 48 3 HOH HOH 48 B HOH 52 3 HOH HOH 52 B HOH 53 3 HOH HOH 53 B HOH 55 3 HOH HOH 55 B HOH 57 3 HOH HOH 57 B HOH 59 3 HOH HOH 59 B HOH 60 3 HOH HOH 60 B HOH 62 3 HOH HOH 62 B HOH 63 3 HOH HOH 63 B HOH 64 3 HOH HOH 64 B HOH 66 3 HOH HOH 66 B HOH 69 3 HOH HOH 69 B HOH 70 3 HOH HOH 70 B HOH 71 3 HOH HOH 71 B HOH 73 3 HOH HOH 73 B HOH 74 3 HOH HOH 74 B HOH 75 3 HOH HOH 75 B HOH 78 3 HOH HOH 78 B HOH 79 3 HOH HOH 79 B HOH 82 3 HOH HOH 82 B HOH 86 3 HOH HOH 86 B HOH 87 3 HOH HOH 87 B HOH 88 3 HOH HOH 88 B HOH 92 3 HOH HOH 92 B HOH 95 3 HOH HOH 95 B HOH 96 3 HOH HOH 96 B HOH 97 3 HOH HOH 97 B HOH 98 3 HOH HOH 98 B HOH 99 3 HOH HOH 99 B HOH 101 3 HOH HOH 101 B HOH 102 3 HOH HOH 102 B HOH 103 3 HOH HOH 103 B HOH 104 3 HOH HOH 104 B HOH 105 3 HOH HOH 105 B HOH 107 3 HOH HOH 107 B HOH 108 3 HOH HOH 108 B HOH 109 3 HOH HOH 109 B HOH 110 3 HOH HOH 110 B HOH 112 3 HOH HOH 112 B HOH 113 3 HOH HOH 113 B HOH 114 3 HOH HOH 114 B HOH 117 3 HOH HOH 117 B HOH 118 3 HOH HOH 118 B HOH 121 3 HOH HOH 121 B HOH 124 3 HOH HOH 124 B HOH 125 3 HOH HOH 125 B HOH 129 3 HOH HOH 129 B HOH 130 3 HOH HOH 130 B HOH 131 3 HOH HOH 131 B HOH 135 3 HOH HOH 135 B HOH 137 3 HOH HOH 137 B HOH 138 3 HOH HOH 138 B HOH 141 3 HOH HOH 141 B HOH 145 3 HOH HOH 145 B HOH 146 3 HOH HOH 146 B HOH 149 3 HOH HOH 149 B DC 1 n 1 DC 1 A DG 2 n 2 DG 2 A DC 3 n 3 DC 3 A DG 4 n 4 DG 4 A DA 5 n 5 DA 5 A DA 6 n 6 DA 6 A DT 7 n 7 DT 7 A DT 8 n 8 DT 8 A DC 9 n 9 DC 9 A DG 10 n 10 DG 10 A DC 11 n 11 DC 11 A DG 12 n 12 DG 12 A DC 13 n 1 DC 13 B DG 14 n 2 DG 14 B DC 15 n 3 DC 15 B DG 16 n 4 DG 16 B DA 17 n 5 DA 17 B DA 18 n 6 DA 18 B DT 19 n 7 DT 19 B DT 20 n 8 DT 20 B DC 21 n 9 DC 21 B DG 22 n 10 DG 22 B DC 23 n 11 DC 23 B DG 24 n 12 DG 24 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 -7.27 0.80 109.40 102.13 A A A O5' C5' C4' DC DC DC 1 1 1 N 1 -5.15 0.40 104.50 99.35 A A A O4' C4' C3' DC DC DC 1 1 1 N 1 9.05 1.10 109.80 118.85 A A A C5' C4' O4' DG DG DG 2 2 2 N 1 7.35 0.30 108.30 115.65 A A A O4' C1' N9 DG DG DG 2 2 2 N 1 -3.22 0.40 104.50 101.28 A A A O4' C4' C3' DC DC DC 3 3 3 N 1 -5.58 0.80 102.40 96.82 A A A C3' C2' C1' DC DC DC 3 3 3 N 1 8.11 0.30 108.30 116.41 A A A O4' C1' N1 DC DC DC 3 3 3 N 1 3.39 0.50 119.90 123.29 A A A C2 N3 C4 DC DC DC 3 3 3 N 1 3.15 0.50 121.00 124.15 A A A C5 C6 N1 DC DC DC 3 3 3 N 1 5.25 0.70 118.00 123.25 A A A N3 C4 N4 DC DC DC 3 3 3 N 1 10.83 1.20 110.70 121.53 A A A O5' P OP2 DG DG DG 4 4 4 N 1 -6.37 0.80 109.40 103.03 A A A O5' C5' C4' DG DG DG 4 4 4 N 1 -10.96 1.60 120.90 109.94 A A A P O5' C5' DG DG DG 4 4 4 N 1 11.01 0.30 108.30 119.31 A A A O4' C1' N9 DG DG DG 4 4 4 N 1 11.03 1.20 110.70 121.73 A A A O5' P OP2 DA DA DA 5 5 5 N 1 -8.69 0.80 109.40 100.71 A A A O5' C5' C4' DA DA DA 5 5 5 N 1 -12.09 1.60 120.90 108.81 A A A P O5' C5' DA DA DA 5 5 5 N 1 -5.31 0.80 105.90 100.59 A A A O4' C1' C2' DA DA DA 5 5 5 N 1 -3.95 0.50 129.30 125.35 A A A N1 C2 N3 DA DA DA 5 5 5 N 1 -9.30 1.50 119.60 110.30 A A A OP1 P OP2 DA DA DA 6 6 6 N 1 8.75 1.20 110.70 119.45 A A A O5' P OP2 DA DA DA 6 6 6 N 1 -6.71 0.40 104.50 97.79 A A A O4' C4' C3' DA DA DA 6 6 6 N 1 9.22 0.30 108.30 117.52 A A A O4' C1' N9 DA DA DA 6 6 6 N 1 3.85 0.60 118.60 122.45 A A A C6 N1 C2 DA DA DA 6 6 6 N 1 -3.62 0.50 129.30 125.68 A A A N1 C2 N3 DA DA DA 6 6 6 N 1 -5.13 0.80 109.40 104.27 A A A O5' C5' C4' DT DT DT 7 7 7 N 1 4.29 0.60 114.60 118.89 A A A N1 C2 N3 DT DT DT 7 7 7 N 1 -6.62 0.60 127.20 120.58 A A A C2 N3 C4 DT DT DT 7 7 7 N 1 4.97 0.60 115.20 120.17 A A A N3 C4 C5 DT DT DT 7 7 7 N 1 -3.77 0.60 119.90 116.13 A A A N3 C4 O4 DT DT DT 7 7 7 N 1 9.13 1.50 120.40 129.53 A A A C6 N1 C1' DT DT DT 7 7 7 N 1 10.49 1.20 119.70 130.19 A A A C3' O3' P DT DT DT 7 7 8 Y 1 -7.46 0.80 109.40 101.94 A A A O5' C5' C4' DT DT DT 8 8 8 N 1 -4.23 0.70 102.20 97.97 A A A C4' C3' C2' DT DT DT 8 8 8 N 1 2.57 0.30 108.30 110.87 A A A O4' C1' N1 DT DT DT 8 8 8 N 1 9.85 1.20 110.70 120.55 A A A O5' P OP2 DC DC DC 9 9 9 N 1 -6.01 0.80 109.40 103.39 A A A O5' C5' C4' DC DC DC 9 9 9 N 1 -17.44 1.60 120.90 103.46 A A A P O5' C5' DC DC DC 9 9 9 N 1 -6.12 0.70 108.00 101.88 A A A O4' C1' N1 DC DC DC 9 9 9 N 1 -10.07 1.60 120.90 110.83 A A A P O5' C5' DG DG DG 10 10 10 N 1 -5.24 0.70 119.90 114.66 A A A N3 C2 N2 DG DG DG 10 10 10 N 1 15.89 1.20 119.70 135.59 A A A C3' O3' P DG DG DC 10 10 11 Y 1 7.87 1.20 110.70 118.57 A A A O5' P OP2 DC DC DC 11 11 11 N 1 -6.98 0.80 109.40 102.42 A A A O5' C5' C4' DC DC DC 11 11 11 N 1 -14.53 1.60 120.90 106.37 A A A P O5' C5' DC DC DC 11 11 11 N 1 -5.31 0.80 102.40 97.09 A A A C3' C2' C1' DC DC DC 11 11 11 N 1 3.88 0.30 108.30 112.18 A A A O4' C1' N1 DC DC DC 11 11 11 N 1 -3.94 0.60 118.90 114.96 A A A N1 C2 O2 DC DC DC 11 11 11 N 1 7.01 0.70 121.90 128.91 A A A N3 C2 O2 DC DC DC 11 11 11 N 1 -8.53 0.80 109.40 100.87 A A A O5' C5' C4' DG DG DG 12 12 12 N 1 -5.88 0.80 102.40 96.52 A A A C3' C2' C1' DG DG DG 12 12 12 N 1 9.22 0.30 108.30 117.52 A A A O4' C1' N9 DG DG DG 12 12 12 N 1 6.41 0.60 119.90 126.31 A A A N1 C6 O6 DG DG DG 12 12 12 N 1 -8.62 0.60 128.60 119.98 A A A C5 C6 O6 DG DG DG 12 12 12 N 1 3.15 0.50 119.90 123.05 B B B C2 N3 C4 DC DC DC 13 13 13 N 1 6.83 0.70 121.90 128.73 B B B N3 C2 O2 DC DC DC 13 13 13 N 1 7.17 0.70 118.00 125.17 B B B N3 C4 N4 DC DC DC 13 13 13 N 1 -5.49 0.70 120.20 114.71 B B B C5 C4 N4 DC DC DC 13 13 13 N 1 11.16 1.20 119.70 130.86 B B B C3' O3' P DC DC DG 13 13 14 Y 1 4.51 0.60 123.90 128.41 B B B N1 C2 N3 DG DG DG 14 14 14 N 1 -3.11 0.50 111.90 108.79 B B B C2 N3 C4 DG DG DG 14 14 14 N 1 -5.69 0.80 109.40 103.71 B B B O5' C5' C4' DC DC DC 15 15 15 N 1 -3.73 0.60 128.60 124.87 B B B C5 C6 O6 DG DG DG 16 16 16 N 1 16.87 1.20 119.70 136.57 B B B C3' O3' P DG DG DA 16 16 17 Y 1 -6.95 0.90 105.70 98.75 B B B O5' P OP1 DA DA DA 17 17 17 N 1 11.39 1.20 110.70 122.09 B B B O5' P OP2 DA DA DA 17 17 17 N 1 -15.52 1.60 120.90 105.38 B B B P O5' C5' DA DA DA 17 17 17 N 1 -2.69 0.40 104.50 101.81 B B B O4' C4' C3' DA DA DA 17 17 17 N 1 4.82 0.60 118.60 123.42 B B B C6 N1 C2 DA DA DA 17 17 17 N 1 -3.30 0.50 110.60 107.30 B B B C2 N3 C4 DA DA DA 17 17 17 N 1 -4.05 0.50 117.70 113.65 B B B C5 C6 N1 DA DA DA 17 17 17 N 1 4.17 0.60 118.60 122.77 B B B N1 C6 N6 DA DA DA 17 17 17 N 1 16.58 1.20 119.70 136.28 B B B C3' O3' P DA DA DA 17 17 18 Y 1 -7.50 0.80 102.40 94.90 B B B C3' C2' C1' DA DA DA 18 18 18 N 1 3.65 0.30 108.30 111.95 B B B O4' C1' N9 DA DA DA 18 18 18 N 1 3.89 0.60 118.60 122.49 B B B C6 N1 C2 DA DA DA 18 18 18 N 1 -4.81 0.50 129.30 124.49 B B B N1 C2 N3 DA DA DA 18 18 18 N 1 -5.23 0.70 102.20 96.97 B B B C4' C3' C2' DT DT DT 19 19 19 N 1 9.50 0.30 108.30 117.80 B B B O4' C1' N1 DT DT DT 19 19 19 N 1 -3.76 0.60 127.20 123.44 B B B C2 N3 C4 DT DT DT 19 19 19 N 1 4.20 0.60 115.20 119.40 B B B N3 C4 C5 DT DT DT 19 19 19 N 1 -6.43 0.60 119.90 113.47 B B B N3 C4 O4 DT DT DT 19 19 19 N 1 -5.79 0.40 104.50 98.71 B B B O4' C4' C3' DT DT DT 20 20 20 N 1 7.62 1.20 115.70 123.32 B B B C5' C4' C3' DT DT DT 20 20 20 N 1 3.09 0.30 108.30 111.39 B B B O4' C1' N1 DT DT DT 20 20 20 N 1 -3.65 0.60 127.20 123.55 B B B C2 N3 C4 DT DT DT 20 20 20 N 1 -11.03 1.50 119.60 108.57 B B B OP1 P OP2 DC DC DC 21 21 21 N 1 5.92 0.30 108.30 114.22 B B B O4' C1' N1 DC DC DC 21 21 21 N 1 3.54 0.50 119.90 123.44 B B B C2 N3 C4 DC DC DC 21 21 21 N 1 3.15 0.50 121.00 124.15 B B B C5 C6 N1 DC DC DC 21 21 21 N 1 5.40 0.70 118.00 123.40 B B B N3 C4 N4 DC DC DC 21 21 21 N 1 28.34 1.20 119.70 148.04 B B B C3' O3' P DC DC DG 21 21 22 Y 1 14.03 1.10 110.50 124.53 B B B O3' P OP1 DC DG DG 21 22 22 Y 1 -11.45 1.50 119.60 108.15 B B B OP1 P OP2 DG DG DG 22 22 22 N 1 -8.90 0.80 109.40 100.50 B B B O5' C5' C4' DG DG DG 22 22 22 N 1 -5.42 0.70 102.20 96.78 B B B C4' C3' C2' DG DG DG 22 22 22 N 1 -8.21 0.80 102.40 94.19 B B B C3' C2' C1' DG DG DG 22 22 22 N 1 7.09 0.30 108.30 115.39 B B B O4' C1' N9 DG DG DG 22 22 22 N 1 -3.36 0.50 111.90 108.54 B B B C2 N3 C4 DG DG DG 22 22 22 N 1 10.87 1.20 119.70 130.57 B B B C3' O3' P DG DG DC 22 22 23 Y 1 -10.36 1.50 119.60 109.24 B B B OP1 P OP2 DC DC DC 23 23 23 N 1 -8.80 0.80 109.40 100.60 B B B O5' C5' C4' DC DC DC 23 23 23 N 1 -10.14 1.60 120.90 110.76 B B B P O5' C5' DC DC DC 23 23 23 N 1 12.85 0.30 108.30 121.15 B B B O4' C1' N1 DC DC DC 23 23 23 N 1 -4.21 0.60 125.10 120.89 B B B C6 N1 C2 DG DG DG 24 24 24 N 1 -4.64 0.60 119.90 115.26 B B B N1 C6 O6 DG DG DG 24 24 24 N 1 A A O3' P DC DG 1 2 -0.076 0.012 1.607 1.531 Y 1 A A C3' C2' DG DG 2 2 -0.052 0.008 1.516 1.464 N 1 A A O5' C5' DG DG 4 4 0.111 0.016 1.440 1.551 N 1 A A P O5' DC DC 9 9 0.064 0.010 1.593 1.657 N 1 A A O4' C4' DG DG 10 10 -0.067 0.010 1.446 1.379 N 1 A A N7 C8 DG DG 10 10 0.044 0.006 1.305 1.349 N 1 A A N3 C4 DC DC 11 11 0.051 0.007 1.335 1.386 N 1 A A C2' C1' DG DG 12 12 0.063 0.010 1.519 1.582 N 1 B B O4' C4' DG DG 14 14 -0.061 0.010 1.446 1.385 N 1 B B C5' C4' DC DC 15 15 0.043 0.007 1.512 1.555 N 1 B B C5' C4' DA DA 17 17 -0.073 0.011 1.509 1.436 N 1 B B P O5' DT DT 19 19 0.095 0.010 1.593 1.688 N 1 B B N3 C4 DT DT 19 19 -0.053 0.008 1.382 1.329 N 1 B B C4 O4 DT DT 19 19 0.054 0.009 1.228 1.282 N 1 B B O3' C3' DC DC 21 21 -0.073 0.006 1.419 1.346 N 1 B B O3' P DC DG 21 22 -0.095 0.012 1.607 1.512 Y 1 B B P O5' DG DG 22 22 0.068 0.010 1.593 1.661 N 1 B B C6 N1 DG DG 22 22 -0.048 0.007 1.391 1.343 N 1 B B P O5' DG DG 24 24 0.078 0.010 1.593 1.671 N 0.1570000 2.250 20.000 2000 1 2.000 TR isotropic TR isotropic 2.250 20.000 126 644 32 486 0 fix fix 2.250 20.000 1DNH 3634 0.000 1 refinement NUCLSQ THE MOLECULAR STRUCTURE OF THE COMPLEX OF HOECHST 33258 AND THE DNA DODECAMER D(CGCGAATTCGCG) 1 N N 1 N N 2 N N 3 N N 3 N N 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 DG 4 A N1 DG 4 1_555 B DC 21 B N3 DC 9 1_555 hydrog WATSON-CRICK A DG 4 A N2 DG 4 1_555 B DC 21 B O2 DC 9 1_555 hydrog WATSON-CRICK A DG 4 A O6 DG 4 1_555 B DC 21 B N4 DC 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 DC 9 A N3 DC 9 1_555 B DG 16 B N1 DG 4 1_555 hydrog WATSON-CRICK A DC 9 A N4 DC 9 1_555 B DG 16 B O6 DG 4 1_555 hydrog WATSON-CRICK A DC 9 A O2 DC 9 1_555 B DG 16 B N2 DG 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 1DNH PDB 1 1DNH 1 12 1DNH 1 12 1DNH A 1 1 12 13 24 1DNH 13 24 1DNH B 1 1 12 BINDING SITE FOR RESIDUE HT B 25 B HT 25 Software 12 A DA 5 A DA 5 12 1_555 A DA 6 A DA 6 12 1_555 A DT 7 A DT 7 12 1_555 A DT 8 A DT 8 12 1_555 A DC 9 A DC 9 12 1_555 B DA 17 B DA 5 12 1_555 B DA 18 B DA 6 12 1_555 B DT 19 B DT 7 12 1_555 B DT 20 B DT 8 12 1_555 B DC 21 B DC 9 12 1_555 B HOH 73 E HOH 12 1_555 B HOH 88 E HOH 12 1_555 19 P 21 21 21