0.039002 0.000000 0.000000 0.000000 0.024207 0.000000 0.000000 0.000000 0.014928 0.00000 0.00000 0.00000 Sriram, M. Van Der Marel, G.A. Roelen, H.L.P.F. Van Boom, J.H. Wang, A.H.-J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 25.640 41.310 66.990 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 C12 H18 N5 O7 P 375.274 n O6-ETHYL-2'-DEOXYGUANOSINE-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 P N 145 N O 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 N C N 156 R C Y 157 N N Y 158 N C Y 159 N N Y 160 N C Y 161 N C N 162 N O Y 163 N N Y 164 N C N 165 N N N 166 N C Y 167 N N Y 168 N C 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 183 N H N 184 N H N 185 N H N 186 N H N 187 N O N 188 N H N 189 N H N 190 N O Y 191 N C Y 192 N C Y 193 N C Y 194 N C Y 195 N C Y 196 N C Y 197 N C Y 198 N N Y 199 N C Y 200 N C Y 201 N N Y 202 N C Y 203 N C Y 204 N C Y 205 N C Y 206 N C Y 207 N N Y 208 N C Y 209 N C Y 210 N N Y 211 N C Y 212 N C Y 213 N C Y 214 N C N 215 N N N 216 N C N 217 N C N 218 N N N 219 N C N 220 N C N 221 N C N 222 N H N 223 N H N 224 N H N 225 N H N 226 N H N 227 N H N 228 N H N 229 N H N 230 N H N 231 N H N 232 N H N 233 N H N 234 N H N 235 N H N 236 N H N 237 N H N 238 N H N 239 N H N 240 N H N 241 N H N 242 N H N 243 N H N 244 N H N 245 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 doub 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 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 Y 177 N sing Y 178 N sing Y 179 N doub N 180 N sing Y 181 N sing Y 182 N doub Y 183 N sing N 184 N sing Y 185 N sing N 186 N sing Y 187 N doub N 188 N sing Y 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing Y 194 N doub N 195 N sing N 196 N sing N 197 N sing N 198 N sing Y 199 N doub Y 200 N sing Y 201 N sing N 202 N sing Y 203 N doub N 204 N sing Y 205 N sing Y 206 N sing Y 207 N doub N 208 N sing N 209 N sing Y 210 N sing Y 211 N doub Y 212 N sing N 213 N sing Y 214 N doub Y 215 N sing Y 216 N sing Y 217 N sing Y 218 N doub N 219 N sing Y 220 N sing N 221 N sing Y 222 N doub Y 223 N sing N 224 N sing Y 225 N sing Y 226 N doub Y 227 N sing N 228 N sing Y 229 N doub Y 230 N sing Y 231 N sing Y 232 N sing Y 233 N doub N 234 N sing Y 235 N sing N 236 N sing Y 237 N doub N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 243 N sing N 244 N sing N 245 N sing N 246 N sing N 247 N sing N 248 N sing N 249 N sing N 250 N sing N 251 N sing N 252 N sing N 253 N sing N 254 N sing N 255 N sing N 256 N sing N 257 N sing UK EMBO J. EMJODG 0897 0261-4189 11 225 232 1371249 Conformation of B-DNA containing O6-ethyl-G-C base pairs stabilized by minor groove binding drugs: molecular structure of d(CGC[e6G]AATTCGCG complexed with Hoechst 33258 or Hoechst 33342. 1992 10.2210/pdb128d/pdb pdb_0000128d 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 ROOM TEMPERATURE 1 DIFFRACTOMETER RIGAKU AFC-5R x-ray 1 1.0 ROTATING ANODE 3691.445 DNA (5'-D(*CP*GP*CP*(G36)P*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 68 nat water no yes (DC)(DG)(DC)(G36)(DA)(DA)(DT)(DT)(DC)(DG)(DC)(DG) CGCGAATTCGCG A,B polydeoxyribonucleotide n n n n n n n n n n n n 2.40 48.81 VAPOR DIFFUSION 6.00 pH 6.00, VAPOR DIFFUSION ROOM TEMPERATURE WATER 1 MPD 1 NA CACODYLATE 1 MGCL2 1 SPERMINE 1 WATER 2 MPD 2 6.673 1 19 A 1 B 24 -5.631 A_DC1:DG24_B 1 -7.587 -0.008 0.229 -0.190 17.743 1 19 A 2 B 23 0.382 A_DG2:DC23_B 2 -6.821 -0.090 0.562 0.126 2.706 1 19 A 3 B 22 -1.158 A_DC3:DG22_B 3 13.780 -0.272 -0.194 -0.041 18.947 1 19 A 4 B 21 5.249 A_G364:DC21_B 4 6.222 0.831 0.355 0.071 14.349 1 20 A 5 B 20 -2.976 A_DA5:DT20_B 5 -11.177 -0.113 0.405 -0.051 20.645 1 20 A 6 B 19 -0.643 A_DA6:DT19_B 6 -17.667 0.311 0.176 -0.043 -1.696 1 20 A 7 B 18 0.199 A_DT7:DA18_B 7 -2.455 -0.285 -0.385 -0.319 2.589 1 20 A 8 B 17 14.833 A_DT8:DA17_B 8 -5.298 0.625 -0.983 -0.320 -9.769 1 19 A 9 B 16 0.604 A_DC9:G3616_B 9 -23.410 -2.152 0.070 -0.145 5.957 1 19 A 10 B 15 -3.879 A_DG10:DC15_B 10 -9.975 0.382 0.044 -0.142 7.759 1 19 A 11 B 14 1.583 A_DC11:DG14_B 11 -13.629 0.198 -0.384 -0.121 -6.111 1 19 A 12 B 13 0.422 A_DG12:DC13_B 12 -3.863 -0.172 -1.218 -0.321 2.977 36.351 A A 1 2 -0.610 B B 24 23 2.965 -0.380 -0.571 0.624 AA_DC1DG2:DC23DG24_BB 1 -1.371 2.198 36.324 1.049 0.741 3.957 39.553 A A 2 3 -6.805 B B 23 22 3.857 -4.577 1.271 0.228 AA_DG2DC3:DG22DC23_BB 2 6.352 -9.444 38.801 0.986 -0.979 3.302 31.716 A A 3 4 -2.153 B B 22 21 3.307 -1.176 0.845 0.830 AA_DC3G364:DC21DG22_BB 3 1.127 -2.063 31.675 1.737 -1.336 3.322 40.318 A A 4 5 18.245 B B 21 20 3.475 12.386 -0.957 0.122 AA_G364DA5:DT20DC21_BB 4 1.381 -2.035 38.420 -1.314 1.554 2.763 46.149 A A 5 6 -21.500 B B 20 19 2.860 -16.507 0.066 -0.221 AA_DA5DA6:DT19DT20_BB 5 2.870 -3.738 43.156 0.979 0.135 3.418 29.639 A A 6 7 17.966 B B 19 18 3.799 9.025 0.874 -0.961 AA_DA6DT7:DA18DT19_BB 6 3.828 -7.621 28.005 -4.041 -0.791 3.176 34.473 A A 7 8 7.327 B B 18 17 3.298 4.288 -0.005 0.027 AA_DT7DT8:DA17DA18_BB 7 8.615 -14.721 33.142 -0.627 1.361 3.760 30.555 A A 8 9 10.731 B B 17 16 3.732 5.599 -0.288 0.513 AA_DT8DC9:G3616DA17_BB 8 -5.056 9.690 29.631 -0.319 -0.621 3.088 44.900 A A 9 10 0.242 B B 16 15 3.164 0.183 -0.041 1.581 AA_DC9DG10:DC15G3616_BB 9 -11.332 14.983 43.518 2.054 -0.943 2.897 38.231 A A 10 11 -10.187 B B 15 14 2.939 -6.639 -1.522 0.291 AA_DG10DC11:DG14DC15_BB 10 -1.294 1.986 37.650 1.195 2.178 4.131 32.634 A A 11 12 7.567 B B 14 13 4.053 4.229 0.474 0.661 AA_DC11DG12:DC13DG14_BB 11 4.224 -7.557 32.097 0.250 0.082 chem_comp_atom chem_comp_bond database_2 struct_conn struct_site repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 1994-01-15 1 1 2008-05-22 1 2 2011-07-13 1 3 2024-02-07 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_leaving_atom_flag _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id BNL Y NDB 1993-06-30 REL HT 2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE HOH water HT 25 2 HT HT 25 A HOH 26 3 HOH HOH 26 A HOH 27 3 HOH HOH 27 A HOH 29 3 HOH HOH 29 A HOH 31 3 HOH HOH 31 A HOH 36 3 HOH HOH 36 A HOH 42 3 HOH HOH 42 A HOH 44 3 HOH HOH 44 A HOH 46 3 HOH HOH 46 A HOH 49 3 HOH HOH 49 A HOH 53 3 HOH HOH 53 A HOH 55 3 HOH HOH 55 A HOH 56 3 HOH HOH 56 A HOH 57 3 HOH HOH 57 A HOH 60 3 HOH HOH 60 A HOH 69 3 HOH HOH 69 A HOH 70 3 HOH HOH 70 A HOH 77 3 HOH HOH 77 A HOH 81 3 HOH HOH 81 A HOH 91 3 HOH HOH 91 A HOH 28 3 HOH HOH 28 B HOH 30 3 HOH HOH 30 B HOH 32 3 HOH HOH 32 B HOH 33 3 HOH HOH 33 B HOH 34 3 HOH HOH 34 B HOH 35 3 HOH HOH 35 B HOH 37 3 HOH HOH 37 B HOH 38 3 HOH HOH 38 B HOH 39 3 HOH HOH 39 B HOH 40 3 HOH HOH 40 B HOH 41 3 HOH HOH 41 B HOH 43 3 HOH HOH 43 B HOH 45 3 HOH HOH 45 B HOH 47 3 HOH HOH 47 B HOH 48 3 HOH HOH 48 B HOH 50 3 HOH HOH 50 B HOH 51 3 HOH HOH 51 B HOH 52 3 HOH HOH 52 B HOH 54 3 HOH HOH 54 B HOH 58 3 HOH HOH 58 B HOH 59 3 HOH HOH 59 B HOH 61 3 HOH HOH 61 B HOH 62 3 HOH HOH 62 B HOH 63 3 HOH HOH 63 B HOH 64 3 HOH HOH 64 B HOH 65 3 HOH HOH 65 B HOH 66 3 HOH HOH 66 B HOH 67 3 HOH HOH 67 B HOH 68 3 HOH HOH 68 B HOH 71 3 HOH HOH 71 B HOH 72 3 HOH HOH 72 B HOH 73 3 HOH HOH 73 B HOH 74 3 HOH HOH 74 B HOH 75 3 HOH HOH 75 B HOH 76 3 HOH HOH 76 B HOH 78 3 HOH HOH 78 B HOH 79 3 HOH HOH 79 B HOH 80 3 HOH HOH 80 B HOH 82 3 HOH HOH 82 B HOH 83 3 HOH HOH 83 B HOH 84 3 HOH HOH 84 B HOH 85 3 HOH HOH 85 B HOH 86 3 HOH HOH 86 B HOH 87 3 HOH HOH 87 B HOH 88 3 HOH HOH 88 B HOH 89 3 HOH HOH 89 B HOH 90 3 HOH HOH 90 B HOH 92 3 HOH HOH 92 B HOH 93 3 HOH HOH 93 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 G36 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 C 9 n 9 DC 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 +G 16 n 4 G36 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 C 21 n 9 DC 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 G36 4 A G36 4 DG B G36 16 B G36 4 DG 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 4.63 0.60 118.90 123.53 A A A N1 C2 O2 DC DC DC 1 1 1 N 1 8.01 1.20 119.70 127.71 A A A C3' O3' P DC DC DG 1 1 2 Y 1 -11.77 1.50 119.60 107.83 A A A OP1 P OP2 DG DG DG 2 2 2 N 1 -8.22 0.80 109.40 101.18 A A A O5' C5' C4' DG DG DG 2 2 2 N 1 -3.06 0.40 104.50 101.44 A A A O4' C4' C3' DG DG DG 2 2 2 N 1 5.13 0.30 108.30 113.43 A A A O4' C1' N9 DG DG DG 2 2 2 N 1 -5.32 0.60 125.10 119.78 A A A C6 N1 C2 DG DG DG 2 2 2 N 1 4.46 0.50 111.50 115.96 A A A C5 C6 N1 DG DG DG 2 2 2 N 1 -4.21 0.60 119.90 115.69 A A A N1 C6 O6 DG DG DG 2 2 2 N 1 6.97 1.10 110.50 117.47 A A A O3' P OP1 DG DC DC 2 3 3 Y 1 -4.28 0.40 104.50 100.22 A A A O4' C4' C3' DC DC DC 3 3 3 N 1 10.07 0.30 108.30 118.37 A A A O4' C1' N1 DC DC DC 3 3 3 N 1 -2.82 0.40 121.90 119.08 A A A N3 C4 C5 DC DC DC 3 3 3 N 1 6.41 0.60 118.90 125.31 A A A N1 C2 O2 DC DC DC 3 3 3 N 1 -5.46 0.70 121.90 116.44 A A A N3 C2 O2 DC DC DC 3 3 3 N 1 -9.55 1.50 119.60 110.05 A A A OP1 P OP2 DA DA DA 5 5 5 N 1 7.75 1.20 110.70 118.45 A A A O5' P OP2 DA DA DA 6 6 6 N 1 2.79 0.30 108.30 111.09 A A A O4' C1' N9 DA DA DA 6 6 6 N 1 -3.77 0.50 129.30 125.53 A A A N1 C2 N3 DA DA DA 6 6 6 N 1 -10.61 1.20 119.70 109.09 A A A C3' O3' P DA DA DT 6 6 7 Y 1 -3.84 0.60 127.20 123.36 A A A C2 N3 C4 DT DT DT 7 7 7 N 1 9.31 1.20 119.70 129.01 A A A C3' O3' P DT DT DT 7 7 8 Y 1 -10.53 1.50 119.60 109.07 A A A OP1 P OP2 DT DT DT 8 8 8 N 1 -4.00 0.40 104.50 100.50 A A A O4' C4' C3' DT DT DT 8 8 8 N 1 2.74 0.30 108.30 111.04 A A A O4' C1' N1 DT DT DT 8 8 8 N 1 -4.01 0.60 119.90 115.89 A A A N3 C4 O4 DT DT DT 8 8 8 N 1 8.42 1.20 110.70 119.12 A A A O5' P OP2 DC DC DC 9 9 9 N 1 -10.74 1.60 120.90 110.16 A A A P O5' C5' DC DC DC 9 9 9 N 1 -5.55 0.70 102.20 96.65 A A A C4' C3' C2' DC DC DC 9 9 9 N 1 6.53 0.30 108.30 114.83 A A A O4' C1' N1 DC DC DC 9 9 9 N 1 3.18 0.50 119.90 123.08 A A A C2 N3 C4 DC DC DC 9 9 9 N 1 -3.59 0.40 121.90 118.31 A A A N3 C4 C5 DC DC DC 9 9 9 N 1 4.65 0.30 108.30 112.95 A A A O4' C1' N9 DG DG DG 10 10 10 N 1 3.32 0.50 111.50 114.82 A A A C5 C6 N1 DG DG DG 10 10 10 N 1 9.30 1.10 110.50 119.80 A A A O3' P OP1 DG DC DC 10 11 11 Y 1 -10.72 1.50 119.60 108.88 A A A OP1 P OP2 DC DC DC 11 11 11 N 1 -10.32 0.80 109.40 99.08 A A A O5' C5' C4' DC DC DC 11 11 11 N 1 10.51 1.20 110.70 121.21 A A A O5' P OP2 DG DG DG 12 12 12 N 1 11.97 1.60 120.90 132.87 A A A P O5' C5' DG DG DG 12 12 12 N 1 -2.69 0.40 104.50 101.81 A A A O4' C4' C3' DG DG DG 12 12 12 N 1 -4.09 0.60 125.10 121.01 A A A C6 N1 C2 DG DG DG 12 12 12 N 1 3.60 0.50 111.50 115.10 A A A C5 C6 N1 DG DG DG 12 12 12 N 1 -4.67 0.60 128.60 123.93 A A A C5 C6 O6 DG DG DG 12 12 12 N 1 3.67 0.30 108.30 111.97 B B B O4' C1' N1 DC DC DC 13 13 13 N 1 3.09 0.50 119.90 122.99 B B B C2 N3 C4 DC DC DC 13 13 13 N 1 -3.08 0.40 121.90 118.82 B B B N3 C4 C5 DC DC DC 13 13 13 N 1 4.81 0.70 120.20 125.01 B B B C5 C4 N4 DC DC DC 13 13 13 N 1 21.48 1.20 119.70 141.18 B B B C3' O3' P DC DC DG 13 13 14 Y 1 -14.09 1.50 119.60 105.51 B B B OP1 P OP2 DG DG DG 14 14 14 N 1 -2.52 0.40 104.50 101.98 B B B O4' C4' C3' DG DG DG 14 14 14 N 1 9.78 0.30 108.30 118.08 B B B O4' C1' N9 DG DG DG 14 14 14 N 1 7.39 1.20 110.70 118.09 B B B O5' P OP2 DC DC DC 15 15 15 N 1 4.75 0.30 108.30 113.05 B B B O4' C1' N1 DC DC DC 15 15 15 N 1 -9.63 1.50 119.60 109.97 B B B OP1 P OP2 DA DA DA 17 17 17 N 1 11.41 1.20 110.70 122.11 B B B O5' P OP1 DA DA DA 17 17 17 N 1 -5.16 0.80 109.40 104.24 B B B O5' C5' C4' DA DA DA 17 17 17 N 1 -3.35 0.50 117.70 114.35 B B B C5 C6 N1 DA DA DA 17 17 17 N 1 -5.72 0.40 104.50 98.78 B B B O4' C4' C3' DT DT DT 19 19 19 N 1 7.70 1.20 115.70 123.40 B B B C5' C4' C3' DT DT DT 19 19 19 N 1 -6.62 1.00 110.10 103.48 B B B C1' O4' C4' DT DT DT 19 19 19 N 1 -5.91 0.70 102.20 96.29 B B B C4' C3' C2' DT DT DT 19 19 19 N 1 7.56 0.30 108.30 115.86 B B B O4' C1' N1 DT DT DT 19 19 19 N 1 4.03 0.60 114.60 118.63 B B B N1 C2 N3 DT DT DT 19 19 19 N 1 -5.42 0.60 127.20 121.78 B B B C2 N3 C4 DT DT DT 19 19 19 N 1 -6.17 0.60 119.90 113.73 B B B N3 C4 O4 DT DT DT 19 19 19 N 1 10.30 1.50 120.40 130.70 B B B C6 N1 C1' DT DT DT 19 19 19 N 1 9.00 1.20 119.70 128.70 B B B C3' O3' P DT DT DT 19 19 20 Y 1 9.82 1.10 110.50 120.32 B B B O3' P OP1 DT DT DT 19 20 20 Y 1 -13.87 1.50 119.60 105.73 B B B OP1 P OP2 DT DT DT 20 20 20 N 1 -7.96 0.80 109.40 101.44 B B B O5' C5' C4' DT DT DT 20 20 20 N 1 6.83 0.30 108.30 115.13 B B B O4' C1' N1 DT DT DT 20 20 20 N 1 -4.12 0.60 127.20 123.08 B B B C2 N3 C4 DT DT DT 20 20 20 N 1 -11.01 1.50 119.60 108.59 B B B OP1 P OP2 DC DC DC 21 21 21 N 1 -3.47 0.40 121.90 118.43 B B B N3 C4 C5 DC DC DC 21 21 21 N 1 -3.16 0.40 104.50 101.34 B B B O4' C4' C3' DG DG DG 22 22 22 N 1 -5.94 0.70 102.20 96.26 B B B C4' C3' C2' DG DG DG 22 22 22 N 1 -4.83 0.60 125.10 120.27 B B B C6 N1 C2 DG DG DG 22 22 22 N 1 4.46 0.50 111.50 115.96 B B B C5 C6 N1 DG DG DG 22 22 22 N 1 -5.78 0.60 119.90 114.12 B B B N1 C6 O6 DG DG DG 22 22 22 N 1 10.29 1.20 119.70 129.99 B B B C3' O3' P DG DG DC 22 22 23 Y 1 6.63 0.30 108.30 114.93 B B B O4' C1' N1 DC DC DC 23 23 23 N 1 -4.96 0.70 118.00 113.04 B B B N3 C4 N4 DC DC DC 23 23 23 N 1 5.20 0.70 120.20 125.40 B B B C5 C4 N4 DC DC DC 23 23 23 N 1 -9.41 1.50 119.60 110.19 B B B OP1 P OP2 DG DG DG 24 24 24 N 1 -2.90 0.40 104.50 101.60 B B B O4' C4' C3' DG DG DG 24 24 24 N 1 -5.42 0.80 102.40 96.98 B B B C3' C2' C1' DG DG DG 24 24 24 N 1 3.96 0.60 119.90 123.86 B B B N1 C6 O6 DG DG DG 24 24 24 N 1 -5.79 0.60 128.60 122.81 B B B C5 C6 O6 DG DG DG 24 24 24 N 1 A A O3' P DA DT 6 7 0.088 0.012 1.607 1.695 Y 1 A A P O5' DT DT 7 7 0.060 0.010 1.593 1.653 N 1 A A P O5' DC DC 9 9 0.086 0.010 1.593 1.679 N 1 A A P OP2 DC DC 11 11 0.109 0.017 1.485 1.594 N 1 A A P O5' DG DG 12 12 -0.075 0.010 1.593 1.518 N 1 B B O3' P DC DG 13 14 -0.088 0.012 1.607 1.519 Y 1 B B N3 C4 DC DC 23 23 0.043 0.007 1.335 1.378 N 1 A A O5' OP2 DC DT 1 7 2.05 1_555 3_655 1 A A C5' OP2 DC DT 1 7 2.08 1_555 3_655 0.145 2.500 1225 1 2.000 TR isotropic TR isotropic 2.500 68 590 36 486 0 0.020 fix fix 2.500 128D 1225 2.000 1 refinement NUCLSQ MOLECULAR STRUCTURE OF D(CGC[E6G]AATTCGCG) COMPLEXED WITH HOECHST 33258 1 N N 1 N N 2 N N 3 N N 3 N N covale 1.622 both A DC 3 A O3' DC 3 1_555 A G36 4 A P G36 4 1_555 covale 1.629 one A G36 4 A O3' G36 4 1_555 A DA 5 A P DA 5 1_555 covale 1.597 both B DC 15 B O3' DC 3 1_555 B G36 16 B P G36 4 1_555 covale 1.642 one B G36 16 B O3' G36 4 1_555 B DA 17 B P DA 5 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 G36 4 A N1 G36 4 1_555 B DC 21 B N3 DC 9 1_555 hydrog WATSON-CRICK A G36 4 A N2 G36 4 1_555 B DC 21 B O2 DC 9 1_555 hydrog WATSON-CRICK A G36 4 A O6 G36 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 G36 16 B N1 G36 4 1_555 hydrog WATSON-CRICK A DC 9 A N4 DC 9 1_555 B G36 16 B O6 G36 4 1_555 hydrog WATSON-CRICK A DC 9 A O2 DC 9 1_555 B G36 16 B N2 G36 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, MODIFIED, DNA 128D PDB 1 128D 1 12 128D 1 12 128D A 1 1 12 13 24 128D 13 24 128D B 1 1 12 BINDING SITE FOR RESIDUE HT A 25 A HT 25 Software 10 A DA 5 A DA 5 10 1_555 A DA 6 A DA 6 10 1_555 A DT 7 A DT 7 10 1_555 A DT 8 A DT 8 10 1_555 A DC 9 A DC 9 10 1_555 B DA 17 B DA 5 10 1_555 B DA 18 B DA 6 10 1_555 B DT 19 B DT 7 10 1_555 B DT 20 B DT 8 10 1_555 B DC 21 B DC 9 10 1_555 19 P 21 21 21