data_5HDY # _model_server_result.job_id 6TIvmqlYZFEkqpanjdaXXA _model_server_result.datetime_utc '2024-10-20 19:42:40' _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 5hdy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 5HDY # _exptl.entry_id 5HDY _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 90 _cell.angle_gamma 90 _cell.entry_id 5HDY _cell.length_a 89.657 _cell.length_b 89.657 _cell.length_c 89.657 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5HDY _symmetry.cell_setting ? _symmetry.Int_Tables_number 213 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 B _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 116 n n C1 C2 GOL sing 117 n n C1 H11 GOL sing 118 n n C1 H12 GOL sing 119 n n O1 HO1 GOL sing 120 n n C2 O2 GOL sing 121 n n C2 C3 GOL sing 122 n n C2 H2 GOL sing 123 n n O2 HO2 GOL sing 124 n n C3 O3 GOL sing 125 n n C3 H31 GOL sing 126 n n C3 H32 GOL sing 127 n n O3 HO3 GOL sing 128 n n # _atom_sites.entry_id 5HDY _atom_sites.fract_transf_matrix[1][1] 0.011154 _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] 0.011154 _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] 0.011154 _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 GOL A 1 501 1 GOL GOL . C 3 HOH A 1 601 96 HOH HOH . C 3 HOH A 2 602 33 HOH HOH . C 3 HOH A 3 603 110 HOH HOH . C 3 HOH A 4 604 19 HOH HOH . C 3 HOH A 5 605 32 HOH HOH . C 3 HOH A 6 606 43 HOH HOH . C 3 HOH A 7 607 20 HOH HOH . C 3 HOH A 8 608 118 HOH HOH . C 3 HOH A 9 609 27 HOH HOH . C 3 HOH A 10 610 89 HOH HOH . C 3 HOH A 11 611 88 HOH HOH . C 3 HOH A 12 612 10 HOH HOH . C 3 HOH A 13 613 112 HOH HOH . C 3 HOH A 14 614 61 HOH HOH . C 3 HOH A 15 615 34 HOH HOH . C 3 HOH A 16 616 51 HOH HOH . C 3 HOH A 17 617 15 HOH HOH . C 3 HOH A 18 618 39 HOH HOH . C 3 HOH A 19 619 16 HOH HOH . C 3 HOH A 20 620 100 HOH HOH . C 3 HOH A 21 621 13 HOH HOH . C 3 HOH A 22 622 35 HOH HOH . C 3 HOH A 23 623 82 HOH HOH . C 3 HOH A 24 624 36 HOH HOH . C 3 HOH A 25 625 3 HOH HOH . C 3 HOH A 26 626 42 HOH HOH . C 3 HOH A 27 627 37 HOH HOH . C 3 HOH A 28 628 41 HOH HOH . C 3 HOH A 29 629 90 HOH HOH . C 3 HOH A 30 630 1 HOH HOH . C 3 HOH A 31 631 18 HOH HOH . C 3 HOH A 32 632 73 HOH HOH . C 3 HOH A 33 633 86 HOH HOH . C 3 HOH A 34 634 72 HOH HOH . C 3 HOH A 35 635 87 HOH HOH . C 3 HOH A 36 636 70 HOH HOH . C 3 HOH A 37 637 56 HOH HOH . C 3 HOH A 38 638 47 HOH HOH . C 3 HOH A 39 639 116 HOH HOH . C 3 HOH A 40 640 80 HOH HOH . C 3 HOH A 41 641 25 HOH HOH . C 3 HOH A 42 642 8 HOH HOH . C 3 HOH A 43 643 101 HOH HOH . C 3 HOH A 44 644 4 HOH HOH . C 3 HOH A 45 645 31 HOH HOH . C 3 HOH A 46 646 107 HOH HOH . C 3 HOH A 47 647 95 HOH HOH . C 3 HOH A 48 648 76 HOH HOH . C 3 HOH A 49 649 2 HOH HOH . C 3 HOH A 50 650 24 HOH HOH . C 3 HOH A 51 651 26 HOH HOH . C 3 HOH A 52 652 7 HOH HOH . C 3 HOH A 53 653 14 HOH HOH . C 3 HOH A 54 654 38 HOH HOH . C 3 HOH A 55 655 29 HOH HOH . C 3 HOH A 56 656 28 HOH HOH . C 3 HOH A 57 657 21 HOH HOH . C 3 HOH A 58 658 5 HOH HOH . C 3 HOH A 59 659 109 HOH HOH . C 3 HOH A 60 660 22 HOH HOH . C 3 HOH A 61 661 23 HOH HOH . C 3 HOH A 62 662 53 HOH HOH . C 3 HOH A 63 663 40 HOH HOH . C 3 HOH A 64 664 30 HOH HOH . C 3 HOH A 65 665 59 HOH HOH . C 3 HOH A 66 666 67 HOH HOH . C 3 HOH A 67 667 60 HOH HOH . C 3 HOH A 68 668 91 HOH HOH . C 3 HOH A 69 669 9 HOH HOH . C 3 HOH A 70 670 44 HOH HOH . C 3 HOH A 71 671 45 HOH HOH . C 3 HOH A 72 672 81 HOH HOH . C 3 HOH A 73 673 64 HOH HOH . C 3 HOH A 74 674 93 HOH HOH . C 3 HOH A 75 675 49 HOH HOH . C 3 HOH A 76 676 46 HOH HOH . C 3 HOH A 77 677 6 HOH HOH . C 3 HOH A 78 678 94 HOH HOH . C 3 HOH A 79 679 12 HOH HOH . C 3 HOH A 80 680 83 HOH HOH . C 3 HOH A 81 681 77 HOH HOH . C 3 HOH A 82 682 115 HOH HOH . C 3 HOH A 83 683 84 HOH HOH . C 3 HOH A 84 684 54 HOH HOH . C 3 HOH A 85 685 99 HOH HOH . C 3 HOH A 86 686 75 HOH HOH . C 3 HOH A 87 687 55 HOH HOH . C 3 HOH A 88 688 58 HOH HOH . C 3 HOH A 89 689 65 HOH HOH . C 3 HOH A 90 690 66 HOH HOH . C 3 HOH A 91 691 117 HOH HOH . C 3 HOH A 92 692 79 HOH HOH . C 3 HOH A 93 693 114 HOH HOH . C 3 HOH A 94 694 11 HOH HOH . C 3 HOH A 95 695 50 HOH HOH . C 3 HOH A 96 696 111 HOH HOH . C 3 HOH A 97 697 85 HOH HOH . C 3 HOH A 98 698 17 HOH HOH . C 3 HOH A 99 699 52 HOH HOH . C 3 HOH A 100 700 68 HOH HOH . C 3 HOH A 101 701 74 HOH HOH . C 3 HOH A 102 702 63 HOH HOH . C 3 HOH A 103 703 92 HOH HOH . C 3 HOH A 104 704 57 HOH HOH . C 3 HOH A 105 705 104 HOH HOH . C 3 HOH A 106 706 78 HOH HOH . C 3 HOH A 107 707 108 HOH HOH . C 3 HOH A 108 708 69 HOH HOH . C 3 HOH A 109 709 62 HOH HOH . C 3 HOH A 110 710 48 HOH HOH . C 3 HOH A 111 711 71 HOH HOH . C 3 HOH A 112 712 103 HOH HOH . C 3 HOH A 113 713 102 HOH HOH . C 3 HOH A 114 714 106 HOH HOH . C 3 HOH A 115 715 105 HOH HOH . C 3 HOH A 116 716 98 HOH HOH . C 3 HOH A 117 717 113 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 . . . B 2 39.251 62.197 24.139 1 44.13 ? C1 GOL 501 A 1 HETATM 2 O O1 GOL . . . B 2 38.164 62.914 23.599 1 64.51 ? O1 GOL 501 A 1 HETATM 3 C C2 GOL . . . B 2 39.39 60.858 23.428 1 49.2 ? C2 GOL 501 A 1 HETATM 4 O O2 GOL . . . B 2 39.797 61.114 22.094 1 69.67 ? O2 GOL 501 A 1 HETATM 5 C C3 GOL . . . B 2 38.1 60.057 23.349 1 50.34 ? C3 GOL 501 A 1 HETATM 6 O O3 GOL . . . B 2 38.4 58.692 22.986 1 49.37 ? O3 GOL 501 A 1 HETATM 7 H H11 GOL . . . B 2 39.09 62.033 25.204 1 52.95 ? H11 GOL 501 A 1 HETATM 8 H H12 GOL . . . B 2 40.168 62.774 24.019 1 52.95 ? H12 GOL 501 A 1 HETATM 9 H HO1 GOL . . . B 2 38.038 63.745 24.103 1 77.41 ? HO1 GOL 501 A 1 HETATM 10 H H2 GOL . . . B 2 40.145 60.262 23.941 1 59.04 ? H2 GOL 501 A 1 HETATM 11 H HO2 GOL . . . B 2 39.932 60.264 21.625 1 83.61 ? HO2 GOL 501 A 1 HETATM 12 H H31 GOL . . . B 2 37.437 60.499 22.605 1 60.4 ? H31 GOL 501 A 1 HETATM 13 H H32 GOL . . . B 2 37.593 60.079 24.314 1 60.4 ? H32 GOL 501 A 1 HETATM 14 H HO3 GOL . . . B 2 38.665 58.655 22.043 1 59.24 ? HO3 GOL 501 A 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 248 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #