data_5GJM # _model_server_result.job_id RDF0G6358W9uI6S1S1n9dQ _model_server_result.datetime_utc '2025-02-05 16:56:24' _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 5gjm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 5GJM # _exptl.entry_id 5GJM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 2 _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 _cell.angle_beta 101.03 _cell.angle_gamma 90 _cell.entry_id 5GJM _cell.length_a 146.45 _cell.length_b 70.794 _cell.length_c 88.061 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5GJM _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _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 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 5GJM _atom_sites.fract_transf_matrix[1][1] 0.006828 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001331 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014125 _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] 0.01157 _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 GOL A 1 401 2 GOL GOL . D 3 HOH A 1 501 102 HOH HOH . D 3 HOH A 2 502 103 HOH HOH . D 3 HOH A 3 503 11 HOH HOH . D 3 HOH A 4 504 114 HOH HOH . D 3 HOH A 5 505 93 HOH HOH . D 3 HOH A 6 506 26 HOH HOH . D 3 HOH A 7 507 116 HOH HOH . D 3 HOH A 8 508 143 HOH HOH . D 3 HOH A 9 509 137 HOH HOH . D 3 HOH A 10 510 25 HOH HOH . D 3 HOH A 11 511 37 HOH HOH . D 3 HOH A 12 512 24 HOH HOH . D 3 HOH A 13 513 59 HOH HOH . D 3 HOH A 14 514 63 HOH HOH . D 3 HOH A 15 515 121 HOH HOH . D 3 HOH A 16 516 133 HOH HOH . D 3 HOH A 17 517 49 HOH HOH . D 3 HOH A 18 518 65 HOH HOH . D 3 HOH A 19 519 57 HOH HOH . D 3 HOH A 20 520 76 HOH HOH . D 3 HOH A 21 521 60 HOH HOH . D 3 HOH A 22 522 51 HOH HOH . D 3 HOH A 23 523 66 HOH HOH . D 3 HOH A 24 524 6 HOH HOH . D 3 HOH A 25 525 19 HOH HOH . D 3 HOH A 26 526 138 HOH HOH . D 3 HOH A 27 527 10 HOH HOH . D 3 HOH A 28 528 9 HOH HOH . D 3 HOH A 29 529 128 HOH HOH . D 3 HOH A 30 530 159 HOH HOH . D 3 HOH A 31 531 18 HOH HOH . D 3 HOH A 32 532 96 HOH HOH . D 3 HOH A 33 533 14 HOH HOH . D 3 HOH A 34 534 147 HOH HOH . D 3 HOH A 35 535 20 HOH HOH . D 3 HOH A 36 536 15 HOH HOH . D 3 HOH A 37 537 28 HOH HOH . D 3 HOH A 38 538 17 HOH HOH . D 3 HOH A 39 539 22 HOH HOH . D 3 HOH A 40 540 161 HOH HOH . D 3 HOH A 41 541 112 HOH HOH . D 3 HOH A 42 542 126 HOH HOH . D 3 HOH A 43 543 35 HOH HOH . D 3 HOH A 44 544 124 HOH HOH . D 3 HOH A 45 545 85 HOH HOH . D 3 HOH A 46 546 145 HOH HOH . D 3 HOH A 47 547 149 HOH HOH . D 3 HOH A 48 548 84 HOH HOH . D 3 HOH A 49 549 157 HOH HOH . D 3 HOH A 50 550 78 HOH HOH . D 3 HOH A 51 551 122 HOH HOH . D 3 HOH A 52 552 123 HOH HOH . D 3 HOH A 53 553 117 HOH HOH . D 3 HOH A 54 554 108 HOH HOH . D 3 HOH A 55 555 129 HOH HOH . D 3 HOH A 56 556 8 HOH HOH . D 3 HOH A 57 557 125 HOH HOH . D 3 HOH A 58 558 87 HOH HOH . D 3 HOH A 59 559 134 HOH HOH . D 3 HOH A 60 560 142 HOH HOH . D 3 HOH A 61 561 104 HOH HOH . D 3 HOH A 62 562 131 HOH HOH . D 3 HOH A 63 563 136 HOH HOH . D 3 HOH A 64 564 81 HOH HOH . D 3 HOH A 65 565 130 HOH HOH . D 3 HOH A 66 566 71 HOH HOH . D 3 HOH A 67 567 163 HOH HOH . E 3 HOH B 1 401 69 HOH HOH . E 3 HOH B 2 402 12 HOH HOH . E 3 HOH B 3 403 72 HOH HOH . E 3 HOH B 4 404 31 HOH HOH . E 3 HOH B 5 405 158 HOH HOH . E 3 HOH B 6 406 80 HOH HOH . E 3 HOH B 7 407 46 HOH HOH . E 3 HOH B 8 408 30 HOH HOH . E 3 HOH B 9 409 86 HOH HOH . E 3 HOH B 10 410 27 HOH HOH . E 3 HOH B 11 411 94 HOH HOH . E 3 HOH B 12 412 90 HOH HOH . E 3 HOH B 13 413 43 HOH HOH . E 3 HOH B 14 414 68 HOH HOH . E 3 HOH B 15 415 34 HOH HOH . E 3 HOH B 16 416 91 HOH HOH . E 3 HOH B 17 417 32 HOH HOH . E 3 HOH B 18 418 56 HOH HOH . E 3 HOH B 19 419 3 HOH HOH . E 3 HOH B 20 420 58 HOH HOH . E 3 HOH B 21 421 62 HOH HOH . E 3 HOH B 22 422 100 HOH HOH . E 3 HOH B 23 423 4 HOH HOH . E 3 HOH B 24 424 23 HOH HOH . E 3 HOH B 25 425 1 HOH HOH . E 3 HOH B 26 426 21 HOH HOH . E 3 HOH B 27 427 2 HOH HOH . E 3 HOH B 28 428 70 HOH HOH . E 3 HOH B 29 429 148 HOH HOH . E 3 HOH B 30 430 7 HOH HOH . E 3 HOH B 31 431 5 HOH HOH . E 3 HOH B 32 432 79 HOH HOH . E 3 HOH B 33 433 29 HOH HOH . E 3 HOH B 34 434 75 HOH HOH . E 3 HOH B 35 435 110 HOH HOH . E 3 HOH B 36 436 97 HOH HOH . E 3 HOH B 37 437 41 HOH HOH . E 3 HOH B 38 438 13 HOH HOH . E 3 HOH B 39 439 95 HOH HOH . E 3 HOH B 40 440 164 HOH HOH . E 3 HOH B 41 441 155 HOH HOH . E 3 HOH B 42 442 156 HOH HOH . E 3 HOH B 43 443 109 HOH HOH . E 3 HOH B 44 444 16 HOH HOH . E 3 HOH B 45 445 101 HOH HOH . E 3 HOH B 46 446 82 HOH HOH . E 3 HOH B 47 447 54 HOH HOH . E 3 HOH B 48 448 61 HOH HOH . E 3 HOH B 49 449 42 HOH HOH . E 3 HOH B 50 450 33 HOH HOH . E 3 HOH B 51 451 152 HOH HOH . E 3 HOH B 52 452 50 HOH HOH . E 3 HOH B 53 453 120 HOH HOH . E 3 HOH B 54 454 160 HOH HOH . E 3 HOH B 55 455 162 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 . . . C 2 -17.96 -29.526 32.613 1 38.56 ? C1 GOL 401 A 1 HETATM 2 O O1 GOL . . . C 2 -18.739 -28.368 32.232 1 37.73 ? O1 GOL 401 A 1 HETATM 3 C C2 GOL . . . C 2 -16.497 -29.298 33.059 1 39.62 ? C2 GOL 401 A 1 HETATM 4 O O2 GOL . . . C 2 -16.479 -29.41 34.487 1 42.88 ? O2 GOL 401 A 1 HETATM 5 C C3 GOL . . . C 2 -15.358 -30.233 32.532 1 38.57 ? C3 GOL 401 A 1 HETATM 6 O O3 GOL . . . C 2 -15.71 -31.363 31.709 1 35.12 ? O3 GOL 401 A 1 # _model_server_stats.io_time_ms 48 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #