data_5QBM # _model_server_result.job_id IGvlLyTCzh6dpdEtvJ_8eQ _model_server_result.datetime_utc '2025-06-28 11:19:57' _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 5qbm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 5QBM # _exptl.entry_id 5QBM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _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 110.25 _cell.angle_gamma 90 _cell.entry_id 5QBM _cell.length_a 45.439 _cell.length_b 73.848 _cell.length_c 53.425 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5QBM _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 ? _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 _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 255 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 255 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 290 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 290 _struct_conn.ptnr2_symmetry 1_555 _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 2.038 _struct_conn.pdbx_value_order ? # _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 187 n n C1 C2 GOL sing 188 n n C1 H11 GOL sing 189 n n C1 H12 GOL sing 190 n n O1 HO1 GOL sing 191 n n C2 O2 GOL sing 192 n n C2 C3 GOL sing 193 n n C2 H2 GOL sing 194 n n O2 HO2 GOL sing 195 n n C3 O3 GOL sing 196 n n C3 H31 GOL sing 197 n n C3 H32 GOL sing 198 n n O3 HO3 GOL sing 199 n n # _atom_sites.entry_id 5QBM _atom_sites.fract_transf_matrix[1][1] 0.022008 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.008117 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013541 _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] 0.01995 _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 DMS A 1 401 1 DMS DMS . C 3 GOL A 1 402 1 GOL GOL . D 4 D9M A 1 403 1 D9M XXX . E 5 HOH A 1 501 842 HOH HOH . E 5 HOH A 2 502 830 HOH HOH . E 5 HOH A 3 503 2095 HOH HOH . E 5 HOH A 4 504 899 HOH HOH . E 5 HOH A 5 505 1558 HOH HOH . E 5 HOH A 6 506 2464 HOH HOH . E 5 HOH A 7 507 1540 HOH HOH . E 5 HOH A 8 508 2152 HOH HOH . E 5 HOH A 9 509 817 HOH HOH . E 5 HOH A 10 510 2182 HOH HOH . E 5 HOH A 11 511 897 HOH HOH . E 5 HOH A 12 512 1081 HOH HOH . E 5 HOH A 13 513 1369 HOH HOH . E 5 HOH A 14 514 959 HOH HOH . E 5 HOH A 15 515 786 HOH HOH . E 5 HOH A 16 516 677 HOH HOH . E 5 HOH A 17 517 2220 HOH HOH . E 5 HOH A 18 518 2357 HOH HOH . E 5 HOH A 19 519 1167 HOH HOH . E 5 HOH A 20 520 1595 HOH HOH . E 5 HOH A 21 521 1958 HOH HOH . E 5 HOH A 22 522 2163 HOH HOH . E 5 HOH A 23 523 1014 HOH HOH . E 5 HOH A 24 524 1538 HOH HOH . E 5 HOH A 25 525 955 HOH HOH . E 5 HOH A 26 526 569 HOH HOH . E 5 HOH A 27 527 995 HOH HOH . E 5 HOH A 28 528 1070 HOH HOH . E 5 HOH A 29 529 2540 HOH HOH . E 5 HOH A 30 530 1734 HOH HOH . E 5 HOH A 31 531 2788 HOH HOH . E 5 HOH A 32 532 2166 HOH HOH . E 5 HOH A 33 533 1210 HOH HOH . E 5 HOH A 34 534 1269 HOH HOH . E 5 HOH A 35 535 925 HOH HOH . E 5 HOH A 36 536 1026 HOH HOH . E 5 HOH A 37 537 1417 HOH HOH . E 5 HOH A 38 538 747 HOH HOH . E 5 HOH A 39 539 744 HOH HOH . E 5 HOH A 40 540 1282 HOH HOH . E 5 HOH A 41 541 1019 HOH HOH . E 5 HOH A 42 542 733 HOH HOH . E 5 HOH A 43 543 589 HOH HOH . E 5 HOH A 44 544 2102 HOH HOH . E 5 HOH A 45 545 1820 HOH HOH . E 5 HOH A 46 546 1651 HOH HOH . E 5 HOH A 47 547 1547 HOH HOH . E 5 HOH A 48 548 629 HOH HOH . E 5 HOH A 49 549 1752 HOH HOH . E 5 HOH A 50 550 835 HOH HOH . E 5 HOH A 51 551 1223 HOH HOH . E 5 HOH A 52 552 1459 HOH HOH . E 5 HOH A 53 553 2660 HOH HOH . E 5 HOH A 54 554 775 HOH HOH . E 5 HOH A 55 555 1513 HOH HOH . E 5 HOH A 56 556 1659 HOH HOH . E 5 HOH A 57 557 1410 HOH HOH . E 5 HOH A 58 558 2110 HOH HOH . E 5 HOH A 59 559 1840 HOH HOH . E 5 HOH A 60 560 1092 HOH HOH . E 5 HOH A 61 561 1833 HOH HOH . E 5 HOH A 62 562 2004 HOH HOH . E 5 HOH A 63 563 2698 HOH HOH . E 5 HOH A 64 564 957 HOH HOH . E 5 HOH A 65 565 1388 HOH HOH . E 5 HOH A 66 566 1302 HOH HOH . E 5 HOH A 67 567 1304 HOH HOH . E 5 HOH A 68 568 1776 HOH HOH . E 5 HOH A 69 569 1863 HOH HOH . E 5 HOH A 70 570 582 HOH HOH . E 5 HOH A 71 571 2307 HOH HOH . E 5 HOH A 72 572 1999 HOH HOH . E 5 HOH A 73 573 2552 HOH HOH . E 5 HOH A 74 574 2055 HOH HOH . E 5 HOH A 75 575 638 HOH HOH . E 5 HOH A 76 576 1782 HOH HOH . E 5 HOH A 77 577 992 HOH HOH . E 5 HOH A 78 578 1461 HOH HOH . E 5 HOH A 79 579 877 HOH HOH . E 5 HOH A 80 580 988 HOH HOH . E 5 HOH A 81 581 690 HOH HOH . E 5 HOH A 82 582 1058 HOH HOH . E 5 HOH A 83 583 1523 HOH HOH . E 5 HOH A 84 584 1111 HOH HOH . E 5 HOH A 85 585 1359 HOH HOH . E 5 HOH A 86 586 2216 HOH HOH . E 5 HOH A 87 587 1646 HOH HOH . E 5 HOH A 88 588 1180 HOH HOH . E 5 HOH A 89 589 1594 HOH HOH . E 5 HOH A 90 590 1394 HOH HOH . E 5 HOH A 91 591 1237 HOH HOH . E 5 HOH A 92 592 1236 HOH HOH . E 5 HOH A 93 593 1124 HOH HOH . E 5 HOH A 94 594 2344 HOH HOH . E 5 HOH A 95 595 1401 HOH HOH . E 5 HOH A 96 596 1816 HOH HOH . E 5 HOH A 97 597 686 HOH HOH . E 5 HOH A 98 598 1832 HOH HOH . E 5 HOH A 99 599 1004 HOH HOH . E 5 HOH A 100 600 1716 HOH HOH . E 5 HOH A 101 601 971 HOH HOH . E 5 HOH A 102 602 1342 HOH HOH . E 5 HOH A 103 603 938 HOH HOH . E 5 HOH A 104 604 1077 HOH HOH . E 5 HOH A 105 605 807 HOH HOH . E 5 HOH A 106 606 1226 HOH HOH . E 5 HOH A 107 607 612 HOH HOH . E 5 HOH A 108 608 1572 HOH HOH . E 5 HOH A 109 609 1244 HOH HOH . E 5 HOH A 110 610 1853 HOH HOH . E 5 HOH A 111 611 2085 HOH HOH . E 5 HOH A 112 612 2093 HOH HOH . E 5 HOH A 113 613 621 HOH HOH . E 5 HOH A 114 614 978 HOH HOH . E 5 HOH A 115 615 501 HOH HOH . E 5 HOH A 116 616 798 HOH HOH . E 5 HOH A 117 617 826 HOH HOH . E 5 HOH A 118 618 738 HOH HOH . E 5 HOH A 119 619 852 HOH HOH . E 5 HOH A 120 620 2644 HOH HOH . E 5 HOH A 121 621 1475 HOH HOH . E 5 HOH A 122 622 1384 HOH HOH . E 5 HOH A 123 623 970 HOH HOH . E 5 HOH A 124 624 1745 HOH HOH . E 5 HOH A 125 625 1784 HOH HOH . E 5 HOH A 126 626 2137 HOH HOH . E 5 HOH A 127 627 905 HOH HOH . E 5 HOH A 128 628 1851 HOH HOH . E 5 HOH A 129 629 1308 HOH HOH . E 5 HOH A 130 630 996 HOH HOH . E 5 HOH A 131 631 1593 HOH HOH . E 5 HOH A 132 632 588 HOH HOH . E 5 HOH A 133 633 1365 HOH HOH . E 5 HOH A 134 634 1316 HOH HOH . E 5 HOH A 135 635 1010 HOH HOH . E 5 HOH A 136 636 1658 HOH HOH . E 5 HOH A 137 637 1290 HOH HOH . E 5 HOH A 138 638 1038 HOH HOH . E 5 HOH A 139 639 1928 HOH HOH . E 5 HOH A 140 640 2247 HOH HOH . E 5 HOH A 141 641 1340 HOH HOH . E 5 HOH A 142 642 2159 HOH HOH . E 5 HOH A 143 643 1817 HOH HOH . E 5 HOH A 144 644 1515 HOH HOH . E 5 HOH A 145 645 2227 HOH HOH . E 5 HOH A 146 646 2533 HOH HOH . E 5 HOH A 147 647 1115 HOH HOH . E 5 HOH A 148 648 1107 HOH HOH . E 5 HOH A 149 649 1856 HOH HOH . E 5 HOH A 150 650 1980 HOH HOH . E 5 HOH A 151 651 2426 HOH HOH . E 5 HOH A 152 652 731 HOH HOH . E 5 HOH A 153 653 1638 HOH HOH . E 5 HOH A 154 654 1731 HOH HOH . E 5 HOH A 155 655 1141 HOH HOH . E 5 HOH A 156 656 760 HOH HOH . E 5 HOH A 157 657 2688 HOH HOH . E 5 HOH A 158 658 2657 HOH HOH . E 5 HOH A 159 659 1839 HOH HOH . E 5 HOH A 160 660 1140 HOH HOH . E 5 HOH A 161 661 2210 HOH HOH . E 5 HOH A 162 662 1463 HOH HOH . E 5 HOH A 163 663 804 HOH HOH . E 5 HOH A 164 664 1531 HOH HOH . E 5 HOH A 165 665 2308 HOH HOH . E 5 HOH A 166 666 1612 HOH HOH . E 5 HOH A 167 667 1349 HOH HOH . E 5 HOH A 168 668 2451 HOH HOH . E 5 HOH A 169 669 1566 HOH HOH . E 5 HOH A 170 670 2415 HOH HOH . E 5 HOH A 171 671 1436 HOH HOH . E 5 HOH A 172 672 1516 HOH HOH . E 5 HOH A 173 673 813 HOH HOH . E 5 HOH A 174 674 1149 HOH HOH . E 5 HOH A 175 675 1718 HOH HOH . E 5 HOH A 176 676 819 HOH HOH . E 5 HOH A 177 677 1932 HOH HOH . E 5 HOH A 178 678 2535 HOH HOH . E 5 HOH A 179 679 1498 HOH HOH . E 5 HOH A 180 680 2057 HOH HOH . E 5 HOH A 181 681 1699 HOH HOH . E 5 HOH A 182 682 1844 HOH HOH . E 5 HOH A 183 683 2125 HOH HOH . E 5 HOH A 184 684 1897 HOH HOH . E 5 HOH A 185 685 969 HOH HOH . E 5 HOH A 186 686 1906 HOH HOH . E 5 HOH A 187 687 1089 HOH HOH . E 5 HOH A 188 688 1095 HOH HOH . E 5 HOH A 189 689 948 HOH HOH . E 5 HOH A 190 690 1757 HOH HOH . E 5 HOH A 191 691 1292 HOH HOH . E 5 HOH A 192 692 1110 HOH HOH . E 5 HOH A 193 693 1739 HOH HOH . E 5 HOH A 194 694 748 HOH HOH . E 5 HOH A 195 695 2107 HOH HOH . E 5 HOH A 196 696 510 HOH HOH . E 5 HOH A 197 697 1792 HOH HOH . E 5 HOH A 198 698 1454 HOH HOH . E 5 HOH A 199 699 2338 HOH HOH . E 5 HOH A 200 700 2198 HOH HOH . E 5 HOH A 201 701 2611 HOH HOH . E 5 HOH A 202 702 2364 HOH HOH . E 5 HOH A 203 703 2060 HOH HOH . E 5 HOH A 204 704 2524 HOH HOH . E 5 HOH A 205 705 1936 HOH HOH . E 5 HOH A 206 706 1173 HOH HOH . E 5 HOH A 207 707 1207 HOH HOH . E 5 HOH A 208 708 1799 HOH HOH . E 5 HOH A 209 709 2483 HOH HOH . E 5 HOH A 210 710 1683 HOH HOH . E 5 HOH A 211 711 1535 HOH HOH . E 5 HOH A 212 712 2071 HOH HOH . E 5 HOH A 213 713 611 HOH HOH . E 5 HOH A 214 714 1709 HOH HOH . E 5 HOH A 215 715 1414 HOH HOH . E 5 HOH A 216 716 678 HOH HOH . E 5 HOH A 217 717 2285 HOH HOH . E 5 HOH A 218 718 1637 HOH HOH . E 5 HOH A 219 719 1977 HOH HOH . E 5 HOH A 220 720 1640 HOH HOH . E 5 HOH A 221 721 1562 HOH HOH . E 5 HOH A 222 722 2475 HOH HOH . E 5 HOH A 223 723 1309 HOH HOH . E 5 HOH A 224 724 1118 HOH HOH . E 5 HOH A 225 725 2250 HOH HOH . E 5 HOH A 226 726 867 HOH HOH . E 5 HOH A 227 727 1805 HOH HOH . E 5 HOH A 228 728 2330 HOH HOH . E 5 HOH A 229 729 696 HOH HOH . E 5 HOH A 230 730 1243 HOH HOH . E 5 HOH A 231 731 1565 HOH HOH . E 5 HOH A 232 732 1602 HOH HOH . E 5 HOH A 233 733 864 HOH HOH . E 5 HOH A 234 734 1046 HOH HOH . E 5 HOH A 235 735 743 HOH HOH . E 5 HOH A 236 736 1614 HOH HOH . E 5 HOH A 237 737 2185 HOH HOH . E 5 HOH A 238 738 1386 HOH HOH . E 5 HOH A 239 739 2180 HOH HOH . E 5 HOH A 240 740 870 HOH HOH . E 5 HOH A 241 741 1987 HOH HOH . E 5 HOH A 242 742 1451 HOH HOH . E 5 HOH A 243 743 895 HOH HOH . E 5 HOH A 244 744 2649 HOH HOH . E 5 HOH A 245 745 1172 HOH HOH . E 5 HOH A 246 746 1227 HOH HOH . E 5 HOH A 247 747 1772 HOH HOH . E 5 HOH A 248 748 1073 HOH HOH . E 5 HOH A 249 749 1291 HOH HOH . E 5 HOH A 250 750 1260 HOH HOH . E 5 HOH A 251 751 1190 HOH HOH . E 5 HOH A 252 752 1421 HOH HOH . E 5 HOH A 253 753 1015 HOH HOH . E 5 HOH A 254 754 1706 HOH HOH . E 5 HOH A 255 755 1690 HOH HOH . E 5 HOH A 256 756 1464 HOH HOH . E 5 HOH A 257 757 1682 HOH HOH . E 5 HOH A 258 758 1486 HOH HOH . E 5 HOH A 259 759 1534 HOH HOH . E 5 HOH A 260 760 1694 HOH HOH . E 5 HOH A 261 761 2508 HOH HOH . E 5 HOH A 262 762 1991 HOH HOH . E 5 HOH A 263 763 1069 HOH HOH . E 5 HOH A 264 764 1982 HOH HOH . E 5 HOH A 265 765 2465 HOH HOH . E 5 HOH A 266 766 2404 HOH HOH . E 5 HOH A 267 767 1071 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 3 -11.845 -2.467 -8.849 1 36.33 ? C1 GOL 402 A 1 HETATM 2 O O1 GOL . . . C 3 -11.628 -3.617 -8.056 1 34.18 ? O1 GOL 402 A 1 HETATM 3 C C2 GOL . . . C 3 -12.821 -2.739 -9.987 1 46.35 ? C2 GOL 402 A 1 HETATM 4 O O2 GOL . . . C 3 -13.998 -1.992 -9.779 1 45.56 ? O2 GOL 402 A 1 HETATM 5 C C3 GOL . . . C 3 -12.206 -2.349 -11.331 1 42 ? C3 GOL 402 A 1 HETATM 6 O O3 GOL . . . C 3 -12.269 -0.946 -11.505 1 20.86 ? O3 GOL 402 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 246 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #