data_5ZO1 # _model_server_result.job_id 3bjInglbERryHwdL0AWQYg _model_server_result.datetime_utc '2025-03-04 07:32:26' _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 5zo1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":405}' # _entry.id 5ZO1 # _exptl.entry_id 5ZO1 _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 2 _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 5ZO1 _cell.length_a 109.497 _cell.length_b 109.497 _cell.length_c 182.441 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ZO1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41 2 2' # _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 # 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 # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 1 FUC NAG C1 O1 . O6 HO6 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG B 704 NAG 2 n B NAG 2 B 2 NAG C 706 NAG 2 n B FUC 3 B 3 FUC D 1 FUC # 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 disulf ? disulf1 A SG CYS 20 A CYS 44 1_555 A SG CYS 80 A CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf2 A SG CYS 121 A CYS 145 1_555 A SG CYS 175 A CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf3 A SG CYS 221 A CYS 245 1_555 A SG CYS 267 A CYS 291 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.999 ? disulf ? disulf4 A SG CYS 221 A CYS 245 1_555 A SG CYS 267 A CYS 291 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.059 ? covale ? covale1 A ND2 ASN 43 A ASN 67 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale2 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale3 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? # _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 152 n n C1 C2 GOL sing 153 n n C1 H11 GOL sing 154 n n C1 H12 GOL sing 155 n n O1 HO1 GOL sing 156 n n C2 O2 GOL sing 157 n n C2 C3 GOL sing 158 n n C2 H2 GOL sing 159 n n O2 HO2 GOL sing 160 n n C3 O3 GOL sing 161 n n C3 H31 GOL sing 162 n n C3 H32 GOL sing 163 n n O3 HO3 GOL sing 164 n n # _atom_sites.entry_id 5ZO1 _atom_sites.fract_transf_matrix[1][1] 0.009133 _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] 0.009133 _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] 0.005481 _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 3 GOL A 1 404 2 GOL GOL . D 3 GOL A 1 405 3 GOL GOL . E 4 HOH A 1 501 175 HOH HOH . E 4 HOH A 2 502 142 HOH HOH . E 4 HOH A 3 503 181 HOH HOH . E 4 HOH A 4 504 157 HOH HOH . E 4 HOH A 5 505 134 HOH HOH . E 4 HOH A 6 506 78 HOH HOH . E 4 HOH A 7 507 1 HOH HOH . E 4 HOH A 8 508 140 HOH HOH . E 4 HOH A 9 509 23 HOH HOH . E 4 HOH A 10 510 20 HOH HOH . E 4 HOH A 11 511 104 HOH HOH . E 4 HOH A 12 512 111 HOH HOH . E 4 HOH A 13 513 122 HOH HOH . E 4 HOH A 14 514 188 HOH HOH . E 4 HOH A 15 515 168 HOH HOH . E 4 HOH A 16 516 106 HOH HOH . E 4 HOH A 17 517 35 HOH HOH . E 4 HOH A 18 518 44 HOH HOH . E 4 HOH A 19 519 27 HOH HOH . E 4 HOH A 20 520 53 HOH HOH . E 4 HOH A 21 521 115 HOH HOH . E 4 HOH A 22 522 176 HOH HOH . E 4 HOH A 23 523 3 HOH HOH . E 4 HOH A 24 524 172 HOH HOH . E 4 HOH A 25 525 21 HOH HOH . E 4 HOH A 26 526 153 HOH HOH . E 4 HOH A 27 527 28 HOH HOH . E 4 HOH A 28 528 143 HOH HOH . E 4 HOH A 29 529 36 HOH HOH . E 4 HOH A 30 530 103 HOH HOH . E 4 HOH A 31 531 12 HOH HOH . E 4 HOH A 32 532 2 HOH HOH . E 4 HOH A 33 533 34 HOH HOH . E 4 HOH A 34 534 170 HOH HOH . E 4 HOH A 35 535 87 HOH HOH . E 4 HOH A 36 536 107 HOH HOH . E 4 HOH A 37 537 22 HOH HOH . E 4 HOH A 38 538 6 HOH HOH . E 4 HOH A 39 539 32 HOH HOH . E 4 HOH A 40 540 74 HOH HOH . E 4 HOH A 41 541 10 HOH HOH . E 4 HOH A 42 542 72 HOH HOH . E 4 HOH A 43 543 77 HOH HOH . E 4 HOH A 44 544 123 HOH HOH . E 4 HOH A 45 545 49 HOH HOH . E 4 HOH A 46 546 42 HOH HOH . E 4 HOH A 47 547 59 HOH HOH . E 4 HOH A 48 548 7 HOH HOH . E 4 HOH A 49 549 137 HOH HOH . E 4 HOH A 50 550 76 HOH HOH . E 4 HOH A 51 551 33 HOH HOH . E 4 HOH A 52 552 69 HOH HOH . E 4 HOH A 53 553 9 HOH HOH . E 4 HOH A 54 554 145 HOH HOH . E 4 HOH A 55 555 8 HOH HOH . E 4 HOH A 56 556 151 HOH HOH . E 4 HOH A 57 557 24 HOH HOH . E 4 HOH A 58 558 18 HOH HOH . E 4 HOH A 59 559 88 HOH HOH . E 4 HOH A 60 560 66 HOH HOH . E 4 HOH A 61 561 30 HOH HOH . E 4 HOH A 62 562 63 HOH HOH . E 4 HOH A 63 563 62 HOH HOH . E 4 HOH A 64 564 57 HOH HOH . E 4 HOH A 65 565 162 HOH HOH . E 4 HOH A 66 566 29 HOH HOH . E 4 HOH A 67 567 4 HOH HOH . E 4 HOH A 68 568 16 HOH HOH . E 4 HOH A 69 569 68 HOH HOH . E 4 HOH A 70 570 73 HOH HOH . E 4 HOH A 71 571 26 HOH HOH . E 4 HOH A 72 572 64 HOH HOH . E 4 HOH A 73 573 152 HOH HOH . E 4 HOH A 74 574 38 HOH HOH . E 4 HOH A 75 575 93 HOH HOH . E 4 HOH A 76 576 48 HOH HOH . E 4 HOH A 77 577 121 HOH HOH . E 4 HOH A 78 578 56 HOH HOH . E 4 HOH A 79 579 101 HOH HOH . E 4 HOH A 80 580 11 HOH HOH . E 4 HOH A 81 581 5 HOH HOH . E 4 HOH A 82 582 17 HOH HOH . E 4 HOH A 83 583 169 HOH HOH . E 4 HOH A 84 584 94 HOH HOH . E 4 HOH A 85 585 47 HOH HOH . E 4 HOH A 86 586 50 HOH HOH . E 4 HOH A 87 587 110 HOH HOH . E 4 HOH A 88 588 13 HOH HOH . E 4 HOH A 89 589 109 HOH HOH . E 4 HOH A 90 590 39 HOH HOH . E 4 HOH A 91 591 95 HOH HOH . E 4 HOH A 92 592 171 HOH HOH . E 4 HOH A 93 593 25 HOH HOH . E 4 HOH A 94 594 61 HOH HOH . E 4 HOH A 95 595 19 HOH HOH . E 4 HOH A 96 596 167 HOH HOH . E 4 HOH A 97 597 96 HOH HOH . E 4 HOH A 98 598 158 HOH HOH . E 4 HOH A 99 599 165 HOH HOH . E 4 HOH A 100 600 51 HOH HOH . E 4 HOH A 101 601 105 HOH HOH . E 4 HOH A 102 602 14 HOH HOH . E 4 HOH A 103 603 119 HOH HOH . E 4 HOH A 104 604 37 HOH HOH . E 4 HOH A 105 605 114 HOH HOH . E 4 HOH A 106 606 84 HOH HOH . E 4 HOH A 107 607 45 HOH HOH . E 4 HOH A 108 608 185 HOH HOH . E 4 HOH A 109 609 15 HOH HOH . E 4 HOH A 110 610 146 HOH HOH . E 4 HOH A 111 611 124 HOH HOH . E 4 HOH A 112 612 173 HOH HOH . E 4 HOH A 113 613 86 HOH HOH . E 4 HOH A 114 614 58 HOH HOH . E 4 HOH A 115 615 97 HOH HOH . E 4 HOH A 116 616 79 HOH HOH . E 4 HOH A 117 617 120 HOH HOH . E 4 HOH A 118 618 55 HOH HOH . E 4 HOH A 119 619 148 HOH HOH . E 4 HOH A 120 620 177 HOH HOH . E 4 HOH A 121 621 54 HOH HOH . E 4 HOH A 122 622 125 HOH HOH . E 4 HOH A 123 623 141 HOH HOH . E 4 HOH A 124 624 80 HOH HOH . E 4 HOH A 125 625 159 HOH HOH . E 4 HOH A 126 626 90 HOH HOH . E 4 HOH A 127 627 40 HOH HOH . E 4 HOH A 128 628 118 HOH HOH . E 4 HOH A 129 629 166 HOH HOH . E 4 HOH A 130 630 70 HOH HOH . E 4 HOH A 131 631 92 HOH HOH . E 4 HOH A 132 632 149 HOH HOH . E 4 HOH A 133 633 178 HOH HOH . E 4 HOH A 134 634 163 HOH HOH . E 4 HOH A 135 635 164 HOH HOH . E 4 HOH A 136 636 131 HOH HOH . E 4 HOH A 137 637 154 HOH HOH . E 4 HOH A 138 638 133 HOH HOH . E 4 HOH A 139 639 46 HOH HOH . E 4 HOH A 140 640 156 HOH HOH . E 4 HOH A 141 641 179 HOH HOH . E 4 HOH A 142 642 41 HOH HOH . E 4 HOH A 143 643 135 HOH HOH . E 4 HOH A 144 644 75 HOH HOH . E 4 HOH A 145 645 150 HOH HOH . E 4 HOH A 146 646 147 HOH HOH . E 4 HOH A 147 647 52 HOH HOH . E 4 HOH A 148 648 116 HOH HOH . E 4 HOH A 149 649 102 HOH HOH . E 4 HOH A 150 650 136 HOH HOH . E 4 HOH A 151 651 85 HOH HOH . E 4 HOH A 152 652 130 HOH HOH . E 4 HOH A 153 653 180 HOH HOH . E 4 HOH A 154 654 144 HOH HOH . E 4 HOH A 155 655 31 HOH HOH . E 4 HOH A 156 656 155 HOH HOH . E 4 HOH A 157 657 128 HOH HOH . E 4 HOH A 158 658 139 HOH HOH . E 4 HOH A 159 659 100 HOH HOH . E 4 HOH A 160 660 174 HOH HOH . E 4 HOH A 161 661 108 HOH HOH . E 4 HOH A 162 662 129 HOH HOH . E 4 HOH A 163 663 67 HOH HOH . E 4 HOH A 164 664 138 HOH HOH . E 4 HOH A 165 665 186 HOH HOH . E 4 HOH A 166 666 161 HOH HOH . E 4 HOH A 167 667 187 HOH HOH . E 4 HOH A 168 668 60 HOH HOH . E 4 HOH A 169 669 126 HOH HOH . E 4 HOH A 170 670 132 HOH HOH . E 4 HOH A 171 671 182 HOH HOH . E 4 HOH A 172 672 184 HOH HOH . E 4 HOH A 173 673 127 HOH HOH . E 4 HOH A 174 674 91 HOH HOH . E 4 HOH A 175 675 117 HOH HOH . E 4 HOH A 176 676 65 HOH HOH . E 4 HOH A 177 677 82 HOH HOH . E 4 HOH A 178 678 89 HOH HOH . E 4 HOH A 179 679 183 HOH HOH . E 4 HOH A 180 680 81 HOH HOH . E 4 HOH A 181 681 99 HOH HOH . E 4 HOH A 182 682 98 HOH HOH . E 4 HOH A 183 683 71 HOH HOH . E 4 HOH A 184 684 160 HOH HOH . E 4 HOH A 185 685 83 HOH HOH . E 4 HOH A 186 686 113 HOH HOH . E 4 HOH A 187 687 112 HOH HOH . E 4 HOH A 188 688 43 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 . . . D 3 46.666 123.191 151.29 1 34.5 ? C1 GOL 405 A 1 HETATM 2 O O1 GOL . . . D 3 45.616 123.342 152.165 1 33.97 ? O1 GOL 405 A 1 HETATM 3 C C2 GOL . . . D 3 47.38 124.503 151.322 1 29.44 ? C2 GOL 405 A 1 HETATM 4 O O2 GOL . . . D 3 46.744 125.197 152.342 1 45.35 ? O2 GOL 405 A 1 HETATM 5 C C3 GOL . . . D 3 48.865 124.299 151.57 1 29.3 ? C3 GOL 405 A 1 HETATM 6 O O3 GOL . . . D 3 49.049 123.294 152.529 1 28.64 ? O3 GOL 405 A 1 HETATM 7 H H11 GOL . . . D 3 47.325 122.386 151.614 1 41.4 ? H11 GOL 405 A 1 HETATM 8 H H12 GOL . . . D 3 46.302 122.975 150.285 1 41.4 ? H12 GOL 405 A 1 HETATM 9 H HO1 GOL . . . D 3 45.058 122.536 152.148 1 40.77 ? HO1 GOL 405 A 1 HETATM 10 H H2 GOL . . . D 3 47.239 125.013 150.369 1 35.32 ? H2 GOL 405 A 1 HETATM 11 H HO2 GOL . . . D 3 46.847 124.706 153.184 1 54.42 ? HO2 GOL 405 A 1 HETATM 12 H H31 GOL . . . D 3 49.358 124.015 150.64 1 35.16 ? H31 GOL 405 A 1 HETATM 13 H H32 GOL . . . D 3 49.311 125.229 151.921 1 35.16 ? H32 GOL 405 A 1 HETATM 14 H HO3 GOL . . . D 3 49.293 123.702 153.386 1 34.37 ? HO3 GOL 405 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #