data_4Y9H # _model_server_result.job_id b51M0fgP_QokMCCx9n1suQ _model_server_result.datetime_utc '2024-11-26 20:55:10' _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 4y9h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":313}' # _entry.id 4Y9H # _exptl.entry_id 4Y9H _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 128.255 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description nonane _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 4Y9H _cell.length_a 45.215 _cell.length_b 102.794 _cell.length_c 128.337 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4Y9H _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S _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 # _struct_asym.details ? _struct_asym.entity_id 8 _struct_asym.id N _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C9 H20' _chem_comp.formula_weight 128.255 _chem_comp.id DD9 _chem_comp.mon_nstd_flag . _chem_comp.name nonane _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 C2 C1 DD9 sing 138 n n C1 H1 DD9 sing 139 n n C1 H1A DD9 sing 140 n n C1 H1B DD9 sing 141 n n C3 C2 DD9 sing 142 n n C2 H2 DD9 sing 143 n n C2 H2A DD9 sing 144 n n C4 C3 DD9 sing 145 n n C3 H3 DD9 sing 146 n n C3 H3A DD9 sing 147 n n C5 C4 DD9 sing 148 n n C4 H4 DD9 sing 149 n n C4 H4A DD9 sing 150 n n C6 C5 DD9 sing 151 n n C5 H5 DD9 sing 152 n n C5 H5A DD9 sing 153 n n C7 C6 DD9 sing 154 n n C6 H6 DD9 sing 155 n n C6 H6A DD9 sing 156 n n C8 C7 DD9 sing 157 n n C7 H7 DD9 sing 158 n n C7 H7A DD9 sing 159 n n C9 C8 DD9 sing 160 n n C8 H8 DD9 sing 161 n n C8 H8A DD9 sing 162 n n C9 H9 DD9 sing 163 n n C9 H9A DD9 sing 164 n n C9 H9B DD9 sing 165 n n # _atom_sites.entry_id 4Y9H _atom_sites.fract_transf_matrix[1][1] 0.022117 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009728 _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] 0.007792 _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 RET A 1 301 301 RET RET . C 3 PO4 A 1 302 310 PO4 PO4 . D 4 HP6 A 1 303 401 HP6 HP6 . E 5 D12 A 1 304 402 D12 D12 . F 5 D12 A 1 305 403 D12 D12 . G 5 D12 A 1 306 405 D12 D12 . H 6 D10 A 1 307 406 D10 D10 . I 6 D10 A 1 308 409 D10 D10 . J 7 R16 A 1 309 411 R16 R16 . K 6 D10 A 1 310 450 D10 D10 . L 5 D12 A 1 311 451 D12 D12 . M 5 D12 A 1 312 452 D12 D12 . N 8 DD9 A 1 313 453 DD9 DD9 . O 5 D12 A 1 314 454 D12 D12 . P 5 D12 A 1 315 455 D12 D12 . Q 5 D12 A 1 316 456 D12 D12 . R 6 D10 A 1 317 457 D10 D10 . S 9 HOH A 1 401 1425 HOH HOH . S 9 HOH A 2 402 1394 HOH HOH . S 9 HOH A 3 403 1280 HOH HOH . S 9 HOH A 4 404 1260 HOH HOH . S 9 HOH A 5 405 1323 HOH HOH . S 9 HOH A 6 406 1435 HOH HOH . S 9 HOH A 7 407 1286 HOH HOH . S 9 HOH A 8 408 1265 HOH HOH . S 9 HOH A 9 409 1263 HOH HOH . S 9 HOH A 10 410 1266 HOH HOH . S 9 HOH A 11 411 1292 HOH HOH . S 9 HOH A 12 412 1287 HOH HOH . S 9 HOH A 13 413 1262 HOH HOH . S 9 HOH A 14 414 1264 HOH HOH . S 9 HOH A 15 415 1309 HOH HOH . S 9 HOH A 16 416 1270 HOH HOH . S 9 HOH A 17 417 1290 HOH HOH . S 9 HOH A 18 418 1293 HOH HOH . S 9 HOH A 19 419 1299 HOH HOH . S 9 HOH A 20 420 1258 HOH HOH . S 9 HOH A 21 421 1272 HOH HOH . S 9 HOH A 22 422 1307 HOH HOH . S 9 HOH A 23 423 1414 HOH HOH . S 9 HOH A 24 424 1304 HOH HOH . S 9 HOH A 25 425 1418 HOH HOH . S 9 HOH A 26 426 1333 HOH HOH . S 9 HOH A 27 427 1289 HOH HOH . S 9 HOH A 28 428 1303 HOH HOH . S 9 HOH A 29 429 1273 HOH HOH . S 9 HOH A 30 430 1276 HOH HOH . S 9 HOH A 31 431 1321 HOH HOH . S 9 HOH A 32 432 1361 HOH HOH . S 9 HOH A 33 433 1440 HOH HOH . S 9 HOH A 34 434 1296 HOH HOH . S 9 HOH A 35 435 1277 HOH HOH . S 9 HOH A 36 436 1261 HOH HOH . S 9 HOH A 37 437 1426 HOH HOH . S 9 HOH A 38 438 1297 HOH HOH . S 9 HOH A 39 439 1338 HOH HOH . S 9 HOH A 40 440 1268 HOH HOH . S 9 HOH A 41 441 1283 HOH HOH . S 9 HOH A 42 442 1291 HOH HOH . S 9 HOH A 43 443 1349 HOH HOH . S 9 HOH A 44 444 1271 HOH HOH . S 9 HOH A 45 445 1430 HOH HOH . S 9 HOH A 46 446 1324 HOH HOH . S 9 HOH A 47 447 1441 HOH HOH . S 9 HOH A 48 448 1314 HOH HOH . S 9 HOH A 49 449 1381 HOH HOH . S 9 HOH A 50 450 1279 HOH HOH . S 9 HOH A 51 451 1285 HOH HOH . S 9 HOH A 52 452 1306 HOH HOH . S 9 HOH A 53 453 1313 HOH HOH . S 9 HOH A 54 454 1288 HOH HOH . S 9 HOH A 55 455 1259 HOH HOH . S 9 HOH A 56 456 1416 HOH HOH . S 9 HOH A 57 457 1346 HOH HOH . S 9 HOH A 58 458 1284 HOH HOH . S 9 HOH A 59 459 1274 HOH HOH . S 9 HOH A 60 460 1424 HOH HOH . S 9 HOH A 61 461 1344 HOH HOH . S 9 HOH A 62 462 1275 HOH HOH . S 9 HOH A 63 463 1325 HOH HOH . S 9 HOH A 64 464 1320 HOH HOH . S 9 HOH A 65 465 1331 HOH HOH . S 9 HOH A 66 466 1362 HOH HOH . S 9 HOH A 67 467 1308 HOH HOH . S 9 HOH A 68 468 1352 HOH HOH . S 9 HOH A 69 469 1300 HOH HOH . S 9 HOH A 70 470 1322 HOH HOH . S 9 HOH A 71 471 1373 HOH HOH . S 9 HOH A 72 472 1334 HOH HOH . S 9 HOH A 73 473 1433 HOH HOH . S 9 HOH A 74 474 1421 HOH HOH . S 9 HOH A 75 475 1438 HOH HOH . S 9 HOH A 76 476 1360 HOH HOH . S 9 HOH A 77 477 1311 HOH HOH . S 9 HOH A 78 478 1342 HOH HOH . S 9 HOH A 79 479 1327 HOH HOH . S 9 HOH A 80 480 1332 HOH HOH . S 9 HOH A 81 481 1413 HOH HOH . S 9 HOH A 82 482 1431 HOH HOH . S 9 HOH A 83 483 1427 HOH HOH . S 9 HOH A 84 484 1336 HOH HOH . S 9 HOH A 85 485 1407 HOH HOH . S 9 HOH A 86 486 1429 HOH HOH . S 9 HOH A 87 487 1422 HOH HOH . S 9 HOH A 88 488 1335 HOH HOH . S 9 HOH A 89 489 1388 HOH HOH . S 9 HOH A 90 490 1432 HOH HOH . S 9 HOH A 91 491 1423 HOH HOH . S 9 HOH A 92 492 1404 HOH HOH . S 9 HOH A 93 493 1439 HOH HOH . S 9 HOH A 94 494 1399 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 DD9 . . . N 8 40.5 12.332 -3.218 1 57.85 ? C1 DD9 313 A 1 HETATM 2 C C2 DD9 . . . N 8 41.464 11.356 -3.892 1 54.83 ? C2 DD9 313 A 1 HETATM 3 C C3 DD9 . . . N 8 41.527 11.43 -5.418 1 50.52 ? C3 DD9 313 A 1 HETATM 4 C C4 DD9 . . . N 8 41.904 10.087 -6.074 1 50.22 ? C4 DD9 313 A 1 HETATM 5 C C5 DD9 . . . N 8 41.632 10.061 -7.574 1 52.71 ? C5 DD9 313 A 1 HETATM 6 C C6 DD9 . . . N 8 41.508 8.685 -8.236 1 49.64 ? C6 DD9 313 A 1 HETATM 7 C C7 DD9 . . . N 8 40.811 8.757 -9.609 1 49.36 ? C7 DD9 313 A 1 HETATM 8 C C8 DD9 . . . N 8 41.576 8.062 -10.744 1 54.99 ? C8 DD9 313 A 1 HETATM 9 C C9 DD9 . . . N 8 40.674 7.625 -11.895 1 55.71 ? C9 DD9 313 A 1 # _model_server_stats.io_time_ms 45 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 383 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 9 #