data_2YQH # _model_server_result.job_id fuwGLXKrmgn-XDdTw4vFFA _model_server_result.datetime_utc '2024-11-28 23:13:31' _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 2yqh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1301}' # _entry.id 2YQH # _exptl.entry_id 2YQH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90.01 _cell.angle_beta 97.72 _cell.angle_gamma 92.88 _cell.entry_id 2YQH _cell.length_a 47.431 _cell.length_b 61.804 _cell.length_c 90.438 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YQH _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,I 1 1 B,G,H,J 2 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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A O ASN 74 A ASN 74 1_555 E MG MG . A MG 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc2 A OD1 ASN 74 A ASN 74 1_555 E MG MG . A MG 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.748 ? metalc ? metalc3 A O THR 77 A THR 77 1_555 E MG MG . A MG 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? metalc ? metalc4 A OG1 THR 77 A THR 77 1_555 E MG MG . A MG 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? metalc ? metalc5 E MG MG . A MG 1201 1_555 I O HOH . A HOH 1447 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.663 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 GOL sing 164 n n C1 C2 GOL sing 165 n n C1 H11 GOL sing 166 n n C1 H12 GOL sing 167 n n O1 HO1 GOL sing 168 n n C2 O2 GOL sing 169 n n C2 C3 GOL sing 170 n n C2 H2 GOL sing 171 n n O2 HO2 GOL sing 172 n n C3 O3 GOL sing 173 n n C3 H31 GOL sing 174 n n C3 H32 GOL sing 175 n n O3 HO3 GOL sing 176 n n # _atom_sites.entry_id 2YQH _atom_sites.fract_transf_matrix[1][1] 0.021083 _atom_sites.fract_transf_matrix[1][2] 0.001061 _atom_sites.fract_transf_matrix[1][3] 0.002864 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016201 _atom_sites.fract_transf_matrix[2][3] 0.000113 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.011159 _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 C 2 GN1 A 1 1001 1001 GN1 NG1 . D 3 SO4 A 1 1102 1102 SO4 SO4 . E 4 MG A 1 1201 1201 MG MG2 . F 5 GOL A 1 1301 1301 GOL GOL . G 2 GN1 B 1 2001 2001 GN1 NG1 . H 3 SO4 B 1 2102 2102 SO4 SO4 . I 6 HOH A 1 1302 1 HOH HOH . I 6 HOH A 2 1303 3 HOH HOH . I 6 HOH A 3 1304 4 HOH HOH . I 6 HOH A 4 1305 5 HOH HOH . I 6 HOH A 5 1306 6 HOH HOH . I 6 HOH A 6 1307 7 HOH HOH . I 6 HOH A 7 1308 8 HOH HOH . I 6 HOH A 8 1309 10 HOH HOH . I 6 HOH A 9 1310 12 HOH HOH . I 6 HOH A 10 1311 13 HOH HOH . I 6 HOH A 11 1312 15 HOH HOH . I 6 HOH A 12 1313 16 HOH HOH . I 6 HOH A 13 1314 17 HOH HOH . I 6 HOH A 14 1315 18 HOH HOH . I 6 HOH A 15 1316 20 HOH HOH . I 6 HOH A 16 1317 23 HOH HOH . I 6 HOH A 17 1318 25 HOH HOH . I 6 HOH A 18 1319 26 HOH HOH . I 6 HOH A 19 1320 27 HOH HOH . I 6 HOH A 20 1321 29 HOH HOH . I 6 HOH A 21 1322 30 HOH HOH . I 6 HOH A 22 1323 31 HOH HOH . I 6 HOH A 23 1324 32 HOH HOH . I 6 HOH A 24 1325 36 HOH HOH . I 6 HOH A 25 1326 37 HOH HOH . I 6 HOH A 26 1327 41 HOH HOH . I 6 HOH A 27 1328 42 HOH HOH . I 6 HOH A 28 1329 43 HOH HOH . I 6 HOH A 29 1330 44 HOH HOH . I 6 HOH A 30 1331 45 HOH HOH . I 6 HOH A 31 1332 46 HOH HOH . I 6 HOH A 32 1333 48 HOH HOH . I 6 HOH A 33 1334 49 HOH HOH . I 6 HOH A 34 1335 50 HOH HOH . I 6 HOH A 35 1336 51 HOH HOH . I 6 HOH A 36 1337 52 HOH HOH . I 6 HOH A 37 1338 55 HOH HOH . I 6 HOH A 38 1339 56 HOH HOH . I 6 HOH A 39 1340 58 HOH HOH . I 6 HOH A 40 1341 62 HOH HOH . I 6 HOH A 41 1342 63 HOH HOH . I 6 HOH A 42 1343 64 HOH HOH . I 6 HOH A 43 1344 67 HOH HOH . I 6 HOH A 44 1345 68 HOH HOH . I 6 HOH A 45 1346 70 HOH HOH . I 6 HOH A 46 1347 71 HOH HOH . I 6 HOH A 47 1348 72 HOH HOH . I 6 HOH A 48 1349 74 HOH HOH . I 6 HOH A 49 1350 75 HOH HOH . I 6 HOH A 50 1351 77 HOH HOH . I 6 HOH A 51 1352 81 HOH HOH . I 6 HOH A 52 1353 83 HOH HOH . I 6 HOH A 53 1354 84 HOH HOH . I 6 HOH A 54 1355 86 HOH HOH . I 6 HOH A 55 1356 87 HOH HOH . I 6 HOH A 56 1357 88 HOH HOH . I 6 HOH A 57 1358 92 HOH HOH . I 6 HOH A 58 1359 94 HOH HOH . I 6 HOH A 59 1360 96 HOH HOH . I 6 HOH A 60 1361 98 HOH HOH . I 6 HOH A 61 1362 103 HOH HOH . I 6 HOH A 62 1363 104 HOH HOH . I 6 HOH A 63 1364 107 HOH HOH . I 6 HOH A 64 1365 111 HOH HOH . I 6 HOH A 65 1366 112 HOH HOH . I 6 HOH A 66 1367 113 HOH HOH . I 6 HOH A 67 1368 114 HOH HOH . I 6 HOH A 68 1369 115 HOH HOH . I 6 HOH A 69 1370 116 HOH HOH . I 6 HOH A 70 1371 117 HOH HOH . I 6 HOH A 71 1372 119 HOH HOH . I 6 HOH A 72 1373 121 HOH HOH . I 6 HOH A 73 1374 122 HOH HOH . I 6 HOH A 74 1375 128 HOH HOH . I 6 HOH A 75 1376 129 HOH HOH . I 6 HOH A 76 1377 130 HOH HOH . I 6 HOH A 77 1378 134 HOH HOH . I 6 HOH A 78 1379 137 HOH HOH . I 6 HOH A 79 1380 139 HOH HOH . I 6 HOH A 80 1381 142 HOH HOH . I 6 HOH A 81 1382 143 HOH HOH . I 6 HOH A 82 1383 144 HOH HOH . I 6 HOH A 83 1384 145 HOH HOH . I 6 HOH A 84 1385 146 HOH HOH . I 6 HOH A 85 1386 147 HOH HOH . I 6 HOH A 86 1387 148 HOH HOH . I 6 HOH A 87 1388 149 HOH HOH . I 6 HOH A 88 1389 151 HOH HOH . I 6 HOH A 89 1390 153 HOH HOH . I 6 HOH A 90 1391 155 HOH HOH . I 6 HOH A 91 1392 156 HOH HOH . I 6 HOH A 92 1393 157 HOH HOH . I 6 HOH A 93 1394 158 HOH HOH . I 6 HOH A 94 1395 159 HOH HOH . I 6 HOH A 95 1396 163 HOH HOH . I 6 HOH A 96 1397 164 HOH HOH . I 6 HOH A 97 1398 166 HOH HOH . I 6 HOH A 98 1399 169 HOH HOH . I 6 HOH A 99 1400 170 HOH HOH . I 6 HOH A 100 1401 171 HOH HOH . I 6 HOH A 101 1402 172 HOH HOH . I 6 HOH A 102 1403 173 HOH HOH . I 6 HOH A 103 1404 175 HOH HOH . I 6 HOH A 104 1405 179 HOH HOH . I 6 HOH A 105 1406 180 HOH HOH . I 6 HOH A 106 1407 181 HOH HOH . I 6 HOH A 107 1408 183 HOH HOH . I 6 HOH A 108 1409 185 HOH HOH . I 6 HOH A 109 1410 186 HOH HOH . I 6 HOH A 110 1411 189 HOH HOH . I 6 HOH A 111 1412 192 HOH HOH . I 6 HOH A 112 1413 196 HOH HOH . I 6 HOH A 113 1414 197 HOH HOH . I 6 HOH A 114 1415 200 HOH HOH . I 6 HOH A 115 1416 201 HOH HOH . I 6 HOH A 116 1417 202 HOH HOH . I 6 HOH A 117 1418 205 HOH HOH . I 6 HOH A 118 1419 208 HOH HOH . I 6 HOH A 119 1420 211 HOH HOH . I 6 HOH A 120 1421 213 HOH HOH . I 6 HOH A 121 1422 214 HOH HOH . I 6 HOH A 122 1423 217 HOH HOH . I 6 HOH A 123 1424 218 HOH HOH . I 6 HOH A 124 1425 219 HOH HOH . I 6 HOH A 125 1426 220 HOH HOH . I 6 HOH A 126 1427 222 HOH HOH . I 6 HOH A 127 1428 223 HOH HOH . I 6 HOH A 128 1429 226 HOH HOH . I 6 HOH A 129 1430 228 HOH HOH . I 6 HOH A 130 1431 231 HOH HOH . I 6 HOH A 131 1432 232 HOH HOH . I 6 HOH A 132 1433 233 HOH HOH . I 6 HOH A 133 1434 234 HOH HOH . I 6 HOH A 134 1435 237 HOH HOH . I 6 HOH A 135 1436 238 HOH HOH . I 6 HOH A 136 1437 239 HOH HOH . I 6 HOH A 137 1438 240 HOH HOH . I 6 HOH A 138 1439 241 HOH HOH . I 6 HOH A 139 1440 244 HOH HOH . I 6 HOH A 140 1441 245 HOH HOH . I 6 HOH A 141 1442 246 HOH HOH . I 6 HOH A 142 1443 247 HOH HOH . I 6 HOH A 143 1444 250 HOH HOH . I 6 HOH A 144 1445 252 HOH HOH . I 6 HOH A 145 1446 253 HOH HOH . I 6 HOH A 146 1447 256 HOH HOH . J 6 HOH B 1 2103 2 HOH HOH . J 6 HOH B 2 2104 9 HOH HOH . J 6 HOH B 3 2105 11 HOH HOH . J 6 HOH B 4 2106 14 HOH HOH . J 6 HOH B 5 2107 19 HOH HOH . J 6 HOH B 6 2108 21 HOH HOH . J 6 HOH B 7 2109 22 HOH HOH . J 6 HOH B 8 2110 24 HOH HOH . J 6 HOH B 9 2111 28 HOH HOH . J 6 HOH B 10 2112 33 HOH HOH . J 6 HOH B 11 2113 34 HOH HOH . J 6 HOH B 12 2114 35 HOH HOH . J 6 HOH B 13 2115 38 HOH HOH . J 6 HOH B 14 2116 39 HOH HOH . J 6 HOH B 15 2117 40 HOH HOH . J 6 HOH B 16 2118 47 HOH HOH . J 6 HOH B 17 2119 53 HOH HOH . J 6 HOH B 18 2120 54 HOH HOH . J 6 HOH B 19 2121 57 HOH HOH . J 6 HOH B 20 2122 59 HOH HOH . J 6 HOH B 21 2123 60 HOH HOH . J 6 HOH B 22 2124 61 HOH HOH . J 6 HOH B 23 2125 65 HOH HOH . J 6 HOH B 24 2126 66 HOH HOH . J 6 HOH B 25 2127 69 HOH HOH . J 6 HOH B 26 2128 73 HOH HOH . J 6 HOH B 27 2129 76 HOH HOH . J 6 HOH B 28 2130 78 HOH HOH . J 6 HOH B 29 2131 79 HOH HOH . J 6 HOH B 30 2132 80 HOH HOH . J 6 HOH B 31 2133 82 HOH HOH . J 6 HOH B 32 2134 85 HOH HOH . J 6 HOH B 33 2135 89 HOH HOH . J 6 HOH B 34 2136 90 HOH HOH . J 6 HOH B 35 2137 91 HOH HOH . J 6 HOH B 36 2138 93 HOH HOH . J 6 HOH B 37 2139 95 HOH HOH . J 6 HOH B 38 2140 97 HOH HOH . J 6 HOH B 39 2141 99 HOH HOH . J 6 HOH B 40 2142 100 HOH HOH . J 6 HOH B 41 2143 101 HOH HOH . J 6 HOH B 42 2144 102 HOH HOH . J 6 HOH B 43 2145 105 HOH HOH . J 6 HOH B 44 2146 106 HOH HOH . J 6 HOH B 45 2147 108 HOH HOH . J 6 HOH B 46 2148 109 HOH HOH . J 6 HOH B 47 2149 110 HOH HOH . J 6 HOH B 48 2150 118 HOH HOH . J 6 HOH B 49 2151 120 HOH HOH . J 6 HOH B 50 2152 123 HOH HOH . J 6 HOH B 51 2153 124 HOH HOH . J 6 HOH B 52 2154 125 HOH HOH . J 6 HOH B 53 2155 126 HOH HOH . J 6 HOH B 54 2156 127 HOH HOH . J 6 HOH B 55 2157 131 HOH HOH . J 6 HOH B 56 2158 132 HOH HOH . J 6 HOH B 57 2159 133 HOH HOH . J 6 HOH B 58 2160 135 HOH HOH . J 6 HOH B 59 2161 136 HOH HOH . J 6 HOH B 60 2162 138 HOH HOH . J 6 HOH B 61 2163 140 HOH HOH . J 6 HOH B 62 2164 141 HOH HOH . J 6 HOH B 63 2165 150 HOH HOH . J 6 HOH B 64 2166 152 HOH HOH . J 6 HOH B 65 2167 154 HOH HOH . J 6 HOH B 66 2168 160 HOH HOH . J 6 HOH B 67 2169 161 HOH HOH . J 6 HOH B 68 2170 162 HOH HOH . J 6 HOH B 69 2171 165 HOH HOH . J 6 HOH B 70 2172 167 HOH HOH . J 6 HOH B 71 2173 168 HOH HOH . J 6 HOH B 72 2174 174 HOH HOH . J 6 HOH B 73 2175 176 HOH HOH . J 6 HOH B 74 2176 177 HOH HOH . J 6 HOH B 75 2177 178 HOH HOH . J 6 HOH B 76 2178 182 HOH HOH . J 6 HOH B 77 2179 184 HOH HOH . J 6 HOH B 78 2180 187 HOH HOH . J 6 HOH B 79 2181 188 HOH HOH . J 6 HOH B 80 2182 190 HOH HOH . J 6 HOH B 81 2183 191 HOH HOH . J 6 HOH B 82 2184 193 HOH HOH . J 6 HOH B 83 2185 194 HOH HOH . J 6 HOH B 84 2186 195 HOH HOH . J 6 HOH B 85 2187 198 HOH HOH . J 6 HOH B 86 2188 199 HOH HOH . J 6 HOH B 87 2189 203 HOH HOH . J 6 HOH B 88 2190 204 HOH HOH . J 6 HOH B 89 2191 206 HOH HOH . J 6 HOH B 90 2192 207 HOH HOH . J 6 HOH B 91 2193 209 HOH HOH . J 6 HOH B 92 2194 210 HOH HOH . J 6 HOH B 93 2195 212 HOH HOH . J 6 HOH B 94 2196 215 HOH HOH . J 6 HOH B 95 2197 216 HOH HOH . J 6 HOH B 96 2198 221 HOH HOH . J 6 HOH B 97 2199 224 HOH HOH . J 6 HOH B 98 2200 225 HOH HOH . J 6 HOH B 99 2201 227 HOH HOH . J 6 HOH B 100 2202 229 HOH HOH . J 6 HOH B 101 2203 230 HOH HOH . J 6 HOH B 102 2204 235 HOH HOH . J 6 HOH B 103 2205 236 HOH HOH . J 6 HOH B 104 2206 242 HOH HOH . J 6 HOH B 105 2207 243 HOH HOH . J 6 HOH B 106 2208 248 HOH HOH . J 6 HOH B 107 2209 249 HOH HOH . J 6 HOH B 108 2210 251 HOH HOH . J 6 HOH B 109 2211 254 HOH HOH . J 6 HOH B 110 2212 255 HOH HOH . J 6 HOH B 111 2213 257 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 GOL . . . F 5 -6.011 1.223 36.056 1 29.67 ? C1 GOL 1301 A 1 HETATM 2 O O1 GOL . . . F 5 -5.605 2.197 37.013 1 30.34 ? O1 GOL 1301 A 1 HETATM 3 C C2 GOL . . . F 5 -5.303 -0.088 36.37 1 31.35 ? C2 GOL 1301 A 1 HETATM 4 O O2 GOL . . . F 5 -5.659 -0.493 37.696 1 30.69 ? O2 GOL 1301 A 1 HETATM 5 C C3 GOL . . . F 5 -5.712 -1.166 35.359 1 31.55 ? C3 GOL 1301 A 1 HETATM 6 O O3 GOL . . . F 5 -5.031 -2.395 35.66 1 33.1 ? O3 GOL 1301 A 1 # _model_server_stats.io_time_ms 63 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #