data_5NKB # _model_server_result.job_id L5kaz8mdLV8798VqwwjsNg _model_server_result.datetime_utc '2024-11-10 18:34:46' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 5nkb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1003}' # _entry.id 5NKB # _exptl.entry_id 5NKB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 108.85 _cell.angle_gamma 90 _cell.entry_id 5NKB _cell.length_a 32.816 _cell.length_b 107.688 _cell.length_c 40.515 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5NKB _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 D N N # _chem_comp.formula 'C2 H6 O2' _chem_comp.formula_weight 62.068 _chem_comp.id EDO _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-ETHANEDIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ETHYLENE GLYCOL' # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 O1 EDO sing 150 n n C1 C2 EDO sing 151 n n C1 H11 EDO sing 152 n n C1 H12 EDO sing 153 n n O1 HO1 EDO sing 154 n n C2 O2 EDO sing 155 n n C2 H21 EDO sing 156 n n C2 H22 EDO sing 157 n n O2 HO2 EDO sing 158 n n # _atom_sites.entry_id 5NKB _atom_sites.fract_transf_matrix[1][1] 0.030473 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.010403 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009286 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.026081 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 8ZT A 1 1001 1001 8ZT 8ZT . C 3 EDO A 1 1002 1002 EDO EDO . D 3 EDO A 1 1003 1003 EDO EDO . E 4 HOH A 1 1101 1101 HOH HOH . E 4 HOH A 2 1102 1102 HOH HOH . E 4 HOH A 3 1103 1103 HOH HOH . E 4 HOH A 4 1104 1104 HOH HOH . E 4 HOH A 5 1105 1105 HOH HOH . E 4 HOH A 6 1106 1106 HOH HOH . E 4 HOH A 7 1107 1107 HOH HOH . E 4 HOH A 8 1108 1108 HOH HOH . E 4 HOH A 9 1109 1109 HOH HOH . E 4 HOH A 10 1110 1110 HOH HOH . E 4 HOH A 11 1111 1111 HOH HOH . E 4 HOH A 12 1112 1112 HOH HOH . E 4 HOH A 13 1113 1113 HOH HOH . E 4 HOH A 14 1114 1114 HOH HOH . E 4 HOH A 15 1115 1115 HOH HOH . E 4 HOH A 16 1116 1116 HOH HOH . E 4 HOH A 17 1117 1117 HOH HOH . E 4 HOH A 18 1118 1118 HOH HOH . E 4 HOH A 19 1119 1119 HOH HOH . E 4 HOH A 20 1120 1120 HOH HOH . E 4 HOH A 21 1121 1121 HOH HOH . E 4 HOH A 22 1122 1122 HOH HOH . E 4 HOH A 23 1123 1123 HOH HOH . E 4 HOH A 24 1124 1124 HOH HOH . E 4 HOH A 25 1125 1125 HOH HOH . E 4 HOH A 26 1126 1126 HOH HOH . E 4 HOH A 27 1127 1127 HOH HOH . E 4 HOH A 28 1128 1128 HOH HOH . E 4 HOH A 29 1129 1129 HOH HOH . E 4 HOH A 30 1130 1130 HOH HOH . E 4 HOH A 31 1131 1131 HOH HOH . E 4 HOH A 32 1132 1132 HOH HOH . E 4 HOH A 33 1133 1133 HOH HOH . E 4 HOH A 34 1134 1134 HOH HOH . E 4 HOH A 35 1135 1135 HOH HOH . E 4 HOH A 36 1136 1136 HOH HOH . E 4 HOH A 37 1137 1137 HOH HOH . E 4 HOH A 38 1138 1138 HOH HOH . E 4 HOH A 39 1139 1139 HOH HOH . E 4 HOH A 40 1140 1140 HOH HOH . E 4 HOH A 41 1141 1141 HOH HOH . E 4 HOH A 42 1142 1142 HOH HOH . E 4 HOH A 43 1143 1143 HOH HOH . E 4 HOH A 44 1144 1144 HOH HOH . E 4 HOH A 45 1145 1145 HOH HOH . E 4 HOH A 46 1146 1146 HOH HOH . E 4 HOH A 47 1147 1147 HOH HOH . E 4 HOH A 48 1148 1148 HOH HOH . E 4 HOH A 49 1149 1149 HOH HOH . E 4 HOH A 50 1150 1150 HOH HOH . E 4 HOH A 51 1151 1151 HOH HOH . E 4 HOH A 52 1152 1152 HOH HOH . E 4 HOH A 53 1153 1153 HOH HOH . E 4 HOH A 54 1154 1154 HOH HOH . E 4 HOH A 55 1155 1155 HOH HOH . E 4 HOH A 56 1156 1156 HOH HOH . E 4 HOH A 57 1157 1157 HOH HOH . E 4 HOH A 58 1158 1158 HOH HOH . E 4 HOH A 59 1159 1159 HOH HOH . E 4 HOH A 60 1160 1160 HOH HOH . E 4 HOH A 61 1161 1161 HOH HOH . E 4 HOH A 62 1162 1162 HOH HOH . E 4 HOH A 63 1163 1163 HOH HOH . E 4 HOH A 64 1164 1164 HOH HOH . E 4 HOH A 65 1165 1165 HOH HOH . E 4 HOH A 66 1166 1166 HOH HOH . E 4 HOH A 67 1167 1167 HOH HOH . E 4 HOH A 68 1168 1168 HOH HOH . E 4 HOH A 69 1169 1169 HOH HOH . E 4 HOH A 70 1170 1170 HOH HOH . E 4 HOH A 71 1171 1171 HOH HOH . E 4 HOH A 72 1172 1172 HOH HOH . E 4 HOH A 73 1173 1173 HOH HOH . E 4 HOH A 74 1174 1174 HOH HOH . E 4 HOH A 75 1175 1175 HOH HOH . E 4 HOH A 76 1176 1176 HOH HOH . E 4 HOH A 77 1177 1177 HOH HOH . E 4 HOH A 78 1178 1178 HOH HOH . E 4 HOH A 79 1179 1179 HOH HOH . E 4 HOH A 80 1180 1180 HOH HOH . E 4 HOH A 81 1181 1181 HOH HOH . E 4 HOH A 82 1182 1182 HOH HOH . E 4 HOH A 83 1183 1183 HOH HOH . E 4 HOH A 84 1184 1184 HOH HOH . E 4 HOH A 85 1185 1185 HOH HOH . E 4 HOH A 86 1186 1186 HOH HOH . E 4 HOH A 87 1187 1187 HOH HOH . E 4 HOH A 88 1188 1188 HOH HOH . E 4 HOH A 89 1189 1189 HOH HOH . E 4 HOH A 90 1190 1190 HOH HOH . E 4 HOH A 91 1191 1191 HOH HOH . E 4 HOH A 92 1192 1192 HOH HOH . E 4 HOH A 93 1193 1193 HOH HOH . E 4 HOH A 94 1194 1194 HOH HOH . E 4 HOH A 95 1195 1195 HOH HOH . E 4 HOH A 96 1196 1196 HOH HOH . E 4 HOH A 97 1197 1197 HOH HOH . E 4 HOH A 98 1198 1198 HOH HOH . E 4 HOH A 99 1199 1199 HOH HOH . E 4 HOH A 100 1200 1200 HOH HOH . E 4 HOH A 101 1201 1201 HOH HOH . E 4 HOH A 102 1202 1202 HOH HOH . E 4 HOH A 103 1203 1203 HOH HOH . E 4 HOH A 104 1204 1204 HOH HOH . E 4 HOH A 105 1205 1205 HOH HOH . E 4 HOH A 106 1206 1206 HOH HOH . E 4 HOH A 107 1207 1207 HOH HOH . E 4 HOH A 108 1208 1208 HOH HOH . E 4 HOH A 109 1209 1209 HOH HOH . E 4 HOH A 110 1210 1210 HOH HOH . E 4 HOH A 111 1211 1211 HOH HOH . E 4 HOH A 112 1212 1212 HOH HOH . E 4 HOH A 113 1213 1213 HOH HOH . E 4 HOH A 114 1214 1214 HOH HOH . E 4 HOH A 115 1215 1215 HOH HOH . E 4 HOH A 116 1216 1216 HOH HOH . E 4 HOH A 117 1217 1217 HOH HOH . E 4 HOH A 118 1218 1218 HOH HOH . E 4 HOH A 119 1219 1219 HOH HOH . E 4 HOH A 120 1220 1220 HOH HOH . E 4 HOH A 121 1221 1221 HOH HOH . E 4 HOH A 122 1222 1222 HOH HOH . E 4 HOH A 123 1223 1223 HOH HOH . E 4 HOH A 124 1224 1224 HOH HOH . E 4 HOH A 125 1225 1225 HOH HOH . E 4 HOH A 126 1226 1226 HOH HOH . E 4 HOH A 127 1227 1227 HOH HOH . E 4 HOH A 128 1228 1228 HOH HOH . E 4 HOH A 129 1229 1229 HOH HOH . E 4 HOH A 130 1230 1230 HOH HOH . E 4 HOH A 131 1231 1231 HOH HOH . E 4 HOH A 132 1232 1232 HOH HOH . E 4 HOH A 133 1233 1233 HOH HOH . E 4 HOH A 134 1234 1234 HOH HOH . E 4 HOH A 135 1235 1235 HOH HOH . E 4 HOH A 136 1236 1236 HOH HOH . E 4 HOH A 137 1237 1237 HOH HOH . E 4 HOH A 138 1238 1238 HOH HOH . E 4 HOH A 139 1239 1239 HOH HOH . E 4 HOH A 140 1240 1240 HOH HOH . E 4 HOH A 141 1241 1241 HOH HOH . E 4 HOH A 142 1242 1242 HOH HOH . E 4 HOH A 143 1243 1243 HOH HOH . E 4 HOH A 144 1244 1244 HOH HOH . E 4 HOH A 145 1245 1245 HOH HOH . E 4 HOH A 146 1246 1246 HOH HOH . E 4 HOH A 147 1247 1247 HOH HOH . E 4 HOH A 148 1248 1248 HOH HOH . E 4 HOH A 149 1249 1249 HOH HOH . E 4 HOH A 150 1250 1250 HOH HOH . E 4 HOH A 151 1251 1251 HOH HOH . E 4 HOH A 152 1252 1252 HOH HOH . E 4 HOH A 153 1253 1253 HOH HOH . E 4 HOH A 154 1254 1254 HOH HOH . E 4 HOH A 155 1255 1255 HOH HOH . E 4 HOH A 156 1256 1256 HOH HOH . E 4 HOH A 157 1257 1257 HOH HOH . E 4 HOH A 158 1258 1258 HOH HOH . E 4 HOH A 159 1259 1259 HOH HOH . E 4 HOH A 160 1260 1260 HOH HOH . E 4 HOH A 161 1261 1261 HOH HOH . E 4 HOH A 162 1262 1262 HOH HOH . E 4 HOH A 163 1263 1263 HOH HOH . E 4 HOH A 164 1264 1264 HOH HOH . E 4 HOH A 165 1265 1265 HOH HOH . E 4 HOH A 166 1266 1266 HOH HOH . E 4 HOH A 167 1267 1267 HOH HOH . E 4 HOH A 168 1268 1268 HOH HOH . E 4 HOH A 169 1269 1269 HOH HOH . E 4 HOH A 170 1270 1270 HOH HOH . E 4 HOH A 171 1271 1271 HOH HOH . E 4 HOH A 172 1272 1272 HOH HOH . E 4 HOH A 173 1273 1273 HOH HOH . E 4 HOH A 174 1274 1274 HOH HOH . E 4 HOH A 175 1275 1275 HOH HOH . E 4 HOH A 176 1276 1276 HOH HOH . E 4 HOH A 177 1277 1277 HOH HOH . E 4 HOH A 178 1278 1278 HOH HOH . E 4 HOH A 179 1279 1279 HOH HOH . E 4 HOH A 180 1280 1280 HOH HOH . E 4 HOH A 181 1281 1281 HOH HOH . E 4 HOH A 182 1282 1282 HOH HOH . E 4 HOH A 183 1283 1283 HOH HOH . E 4 HOH A 184 1284 1284 HOH HOH . E 4 HOH A 185 1285 1285 HOH HOH . E 4 HOH A 186 1286 1286 HOH HOH . E 4 HOH A 187 1287 1287 HOH HOH . E 4 HOH A 188 1288 1288 HOH HOH . E 4 HOH A 189 1289 1289 HOH HOH . E 4 HOH A 190 1290 1290 HOH HOH . E 4 HOH A 191 1291 1291 HOH HOH . E 4 HOH A 192 1292 1292 HOH HOH . E 4 HOH A 193 1293 1293 HOH HOH . E 4 HOH A 194 1294 1294 HOH HOH . E 4 HOH A 195 1295 1295 HOH HOH . E 4 HOH A 196 1296 1296 HOH HOH . E 4 HOH A 197 1297 1297 HOH HOH . E 4 HOH A 198 1298 1298 HOH HOH . E 4 HOH A 199 1299 1299 HOH HOH . E 4 HOH A 200 1300 1300 HOH HOH . E 4 HOH A 201 1301 1301 HOH HOH . E 4 HOH A 202 1302 1302 HOH HOH . E 4 HOH A 203 1303 1303 HOH HOH . E 4 HOH A 204 1304 1304 HOH HOH . E 4 HOH A 205 1305 1305 HOH HOH . E 4 HOH A 206 1306 1306 HOH HOH . E 4 HOH A 207 1307 1307 HOH HOH . E 4 HOH A 208 1308 1308 HOH HOH . E 4 HOH A 209 1309 1309 HOH HOH . E 4 HOH A 210 1310 1310 HOH HOH . E 4 HOH A 211 1311 1311 HOH HOH . E 4 HOH A 212 1312 1312 HOH HOH . E 4 HOH A 213 1313 1313 HOH HOH . E 4 HOH A 214 1314 1314 HOH HOH . E 4 HOH A 215 1315 1315 HOH HOH . E 4 HOH A 216 1316 1316 HOH HOH . E 4 HOH A 217 1317 1317 HOH HOH . E 4 HOH A 218 1318 1318 HOH HOH . E 4 HOH A 219 1319 1319 HOH HOH . E 4 HOH A 220 1320 1320 HOH HOH . E 4 HOH A 221 1321 1321 HOH HOH . E 4 HOH A 222 1322 1322 HOH HOH . E 4 HOH A 223 1323 1323 HOH HOH . E 4 HOH A 224 1324 1324 HOH HOH . E 4 HOH A 225 1325 1325 HOH HOH . E 4 HOH A 226 1326 1326 HOH HOH . E 4 HOH A 227 1327 1327 HOH HOH . E 4 HOH A 228 1328 1328 HOH HOH . E 4 HOH A 229 1329 1329 HOH HOH . E 4 HOH A 230 1330 1330 HOH HOH . E 4 HOH A 231 1331 1331 HOH HOH . E 4 HOH A 232 1332 1332 HOH HOH . E 4 HOH A 233 1333 1333 HOH HOH . E 4 HOH A 234 1334 1334 HOH HOH . E 4 HOH A 235 1335 1335 HOH HOH . E 4 HOH A 236 1336 1336 HOH HOH . E 4 HOH A 237 1337 1337 HOH HOH . E 4 HOH A 238 1338 1338 HOH HOH . E 4 HOH A 239 1339 1339 HOH HOH . E 4 HOH A 240 1340 1340 HOH HOH . E 4 HOH A 241 1341 1341 HOH HOH . E 4 HOH A 242 1342 1342 HOH HOH . E 4 HOH A 243 1343 1343 HOH HOH . E 4 HOH A 244 1344 1344 HOH HOH . E 4 HOH A 245 1345 1345 HOH HOH . E 4 HOH A 246 1346 1346 HOH HOH . E 4 HOH A 247 1347 1347 HOH HOH . E 4 HOH A 248 1348 1348 HOH HOH . E 4 HOH A 249 1349 1349 HOH HOH . E 4 HOH A 250 1350 1350 HOH HOH . E 4 HOH A 251 1351 1351 HOH HOH . E 4 HOH A 252 1352 1352 HOH HOH . E 4 HOH A 253 1353 1353 HOH HOH . E 4 HOH A 254 1354 1354 HOH HOH . E 4 HOH A 255 1355 1355 HOH HOH . E 4 HOH A 256 1356 1356 HOH HOH . E 4 HOH A 257 1357 1357 HOH HOH . E 4 HOH A 258 1358 1358 HOH HOH . E 4 HOH A 259 1359 1359 HOH HOH . E 4 HOH A 260 1360 1360 HOH HOH . E 4 HOH A 261 1361 1361 HOH HOH . E 4 HOH A 262 1362 1362 HOH HOH . E 4 HOH A 263 1363 1363 HOH HOH . E 4 HOH A 264 1364 1364 HOH HOH . E 4 HOH A 265 1365 1365 HOH HOH . E 4 HOH A 266 1366 1366 HOH HOH . E 4 HOH A 267 1367 1367 HOH HOH . E 4 HOH A 268 1368 1368 HOH HOH . E 4 HOH A 269 1369 1369 HOH HOH . E 4 HOH A 270 1370 1370 HOH HOH . E 4 HOH A 271 1371 1371 HOH HOH . E 4 HOH A 272 1372 1372 HOH HOH . E 4 HOH A 273 1373 1373 HOH HOH . E 4 HOH A 274 1374 1374 HOH HOH . E 4 HOH A 275 1375 1375 HOH HOH . E 4 HOH A 276 1376 1376 HOH HOH . E 4 HOH A 277 1377 1377 HOH HOH . E 4 HOH A 278 1378 1378 HOH HOH . E 4 HOH A 279 1379 1379 HOH HOH . E 4 HOH A 280 1380 1380 HOH HOH . E 4 HOH A 281 1381 1381 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 EDO . . . D 3 -76.581 -7.76 30.331 1 40.31 ? C1 EDO 1003 A 1 HETATM 2 O O1 EDO . . . D 3 -77.04 -6.755 29.43 1 55.54 ? O1 EDO 1003 A 1 HETATM 3 C C2 EDO . . . D 3 -77.54 -7.91 31.493 1 34.95 ? C2 EDO 1003 A 1 HETATM 4 O O2 EDO . . . D 3 -77.081 -8.861 32.45 1 48.43 ? O2 EDO 1003 A 1 # _model_server_stats.io_time_ms 49 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 4 #