data_4YRI # _model_server_result.job_id l1TR5tqgFIzV6uA6HJIHkQ _model_server_result.datetime_utc '2024-10-14 23:28:26' _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 4yri # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 4YRI # _exptl.entry_id 4YRI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _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 92.68 _cell.angle_gamma 90 _cell.entry_id 4YRI _cell.length_a 64.382 _cell.length_b 118.685 _cell.length_c 66.108 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YRI _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 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,F,G,H,I,J _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_756 -x+2,y,-z+1 -1 0 0 0 1 0 0 0 -1 125.672937 0 66.035695 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 164 n n C1 C2 GOL sing 165 n n C1 H11 GOL sing 166 n n C1 H12 GOL sing 167 n n O1 HO1 GOL sing 168 n n C2 O2 GOL sing 169 n n C2 C3 GOL sing 170 n n C2 H2 GOL sing 171 n n O2 HO2 GOL sing 172 n n C3 O3 GOL sing 173 n n C3 H31 GOL sing 174 n n C3 H32 GOL sing 175 n n O3 HO3 GOL sing 176 n n # _atom_sites.entry_id 4YRI _atom_sites.fract_transf_matrix[1][1] 0.015532 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000728 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008426 _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] 0.015143 _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 HIS A 1 501 501 HIS HIS . C 3 4JH A 1 502 1 4JH 166 . D 4 GOL A 1 503 1 GOL GOL . E 5 SO4 A 1 504 2 SO4 SO4 . F 5 SO4 A 1 505 3 SO4 SO4 . G 6 EDO A 1 506 5 EDO EDO . H 7 DMS A 1 507 6 DMS DMS . I 7 DMS A 1 508 7 DMS DMS . J 8 HOH A 1 601 196 HOH HOH . J 8 HOH A 2 602 193 HOH HOH . J 8 HOH A 3 603 158 HOH HOH . J 8 HOH A 4 604 164 HOH HOH . J 8 HOH A 5 605 8 HOH HOH . J 8 HOH A 6 606 110 HOH HOH . J 8 HOH A 7 607 57 HOH HOH . J 8 HOH A 8 608 119 HOH HOH . J 8 HOH A 9 609 47 HOH HOH . J 8 HOH A 10 610 154 HOH HOH . J 8 HOH A 11 611 5 HOH HOH . J 8 HOH A 12 612 199 HOH HOH . J 8 HOH A 13 613 50 HOH HOH . J 8 HOH A 14 614 183 HOH HOH . J 8 HOH A 15 615 70 HOH HOH . J 8 HOH A 16 616 33 HOH HOH . J 8 HOH A 17 617 197 HOH HOH . J 8 HOH A 18 618 118 HOH HOH . J 8 HOH A 19 619 18 HOH HOH . J 8 HOH A 20 620 84 HOH HOH . J 8 HOH A 21 621 38 HOH HOH . J 8 HOH A 22 622 77 HOH HOH . J 8 HOH A 23 623 88 HOH HOH . J 8 HOH A 24 624 23 HOH HOH . J 8 HOH A 25 625 82 HOH HOH . J 8 HOH A 26 626 102 HOH HOH . J 8 HOH A 27 627 53 HOH HOH . J 8 HOH A 28 628 19 HOH HOH . J 8 HOH A 29 629 62 HOH HOH . J 8 HOH A 30 630 45 HOH HOH . J 8 HOH A 31 631 65 HOH HOH . J 8 HOH A 32 632 182 HOH HOH . J 8 HOH A 33 633 28 HOH HOH . J 8 HOH A 34 634 117 HOH HOH . J 8 HOH A 35 635 136 HOH HOH . J 8 HOH A 36 636 144 HOH HOH . J 8 HOH A 37 637 58 HOH HOH . J 8 HOH A 38 638 180 HOH HOH . J 8 HOH A 39 639 72 HOH HOH . J 8 HOH A 40 640 87 HOH HOH . J 8 HOH A 41 641 135 HOH HOH . J 8 HOH A 42 642 9 HOH HOH . J 8 HOH A 43 643 120 HOH HOH . J 8 HOH A 44 644 104 HOH HOH . J 8 HOH A 45 645 75 HOH HOH . J 8 HOH A 46 646 188 HOH HOH . J 8 HOH A 47 647 184 HOH HOH . J 8 HOH A 48 648 29 HOH HOH . J 8 HOH A 49 649 40 HOH HOH . J 8 HOH A 50 650 4 HOH HOH . J 8 HOH A 51 651 175 HOH HOH . J 8 HOH A 52 652 157 HOH HOH . J 8 HOH A 53 653 32 HOH HOH . J 8 HOH A 54 654 1 HOH HOH . J 8 HOH A 55 655 181 HOH HOH . J 8 HOH A 56 656 165 HOH HOH . J 8 HOH A 57 657 85 HOH HOH . J 8 HOH A 58 658 14 HOH HOH . J 8 HOH A 59 659 27 HOH HOH . J 8 HOH A 60 660 166 HOH HOH . J 8 HOH A 61 661 100 HOH HOH . J 8 HOH A 62 662 73 HOH HOH . J 8 HOH A 63 663 66 HOH HOH . J 8 HOH A 64 664 44 HOH HOH . J 8 HOH A 65 665 42 HOH HOH . J 8 HOH A 66 666 103 HOH HOH . J 8 HOH A 67 667 41 HOH HOH . J 8 HOH A 68 668 83 HOH HOH . J 8 HOH A 69 669 64 HOH HOH . J 8 HOH A 70 670 21 HOH HOH . J 8 HOH A 71 671 25 HOH HOH . J 8 HOH A 72 672 13 HOH HOH . J 8 HOH A 73 673 63 HOH HOH . J 8 HOH A 74 674 150 HOH HOH . J 8 HOH A 75 675 15 HOH HOH . J 8 HOH A 76 676 148 HOH HOH . J 8 HOH A 77 677 112 HOH HOH . J 8 HOH A 78 678 37 HOH HOH . J 8 HOH A 79 679 92 HOH HOH . J 8 HOH A 80 680 36 HOH HOH . J 8 HOH A 81 681 20 HOH HOH . J 8 HOH A 82 682 6 HOH HOH . J 8 HOH A 83 683 51 HOH HOH . J 8 HOH A 84 684 34 HOH HOH . J 8 HOH A 85 685 16 HOH HOH . J 8 HOH A 86 686 3 HOH HOH . J 8 HOH A 87 687 108 HOH HOH . J 8 HOH A 88 688 138 HOH HOH . J 8 HOH A 89 689 132 HOH HOH . J 8 HOH A 90 690 139 HOH HOH . J 8 HOH A 91 691 11 HOH HOH . J 8 HOH A 92 692 185 HOH HOH . J 8 HOH A 93 693 91 HOH HOH . J 8 HOH A 94 694 101 HOH HOH . J 8 HOH A 95 695 187 HOH HOH . J 8 HOH A 96 696 106 HOH HOH . J 8 HOH A 97 697 114 HOH HOH . J 8 HOH A 98 698 90 HOH HOH . J 8 HOH A 99 699 140 HOH HOH . J 8 HOH A 100 700 146 HOH HOH . J 8 HOH A 101 701 145 HOH HOH . J 8 HOH A 102 702 12 HOH HOH . J 8 HOH A 103 703 43 HOH HOH . J 8 HOH A 104 704 68 HOH HOH . J 8 HOH A 105 705 141 HOH HOH . J 8 HOH A 106 706 147 HOH HOH . J 8 HOH A 107 707 123 HOH HOH . J 8 HOH A 108 708 56 HOH HOH . J 8 HOH A 109 709 111 HOH HOH . J 8 HOH A 110 710 39 HOH HOH . J 8 HOH A 111 711 151 HOH HOH . J 8 HOH A 112 712 46 HOH HOH . J 8 HOH A 113 713 7 HOH HOH . J 8 HOH A 114 714 79 HOH HOH . J 8 HOH A 115 715 54 HOH HOH . J 8 HOH A 116 716 149 HOH HOH . J 8 HOH A 117 717 143 HOH HOH . J 8 HOH A 118 718 60 HOH HOH . J 8 HOH A 119 719 113 HOH HOH . J 8 HOH A 120 720 17 HOH HOH . J 8 HOH A 121 721 31 HOH HOH . J 8 HOH A 122 722 159 HOH HOH . J 8 HOH A 123 723 134 HOH HOH . J 8 HOH A 124 724 163 HOH HOH . J 8 HOH A 125 725 161 HOH HOH . J 8 HOH A 126 726 69 HOH HOH . J 8 HOH A 127 727 30 HOH HOH . J 8 HOH A 128 728 76 HOH HOH . J 8 HOH A 129 729 155 HOH HOH . J 8 HOH A 130 730 2 HOH HOH . J 8 HOH A 131 731 52 HOH HOH . J 8 HOH A 132 732 126 HOH HOH . J 8 HOH A 133 733 169 HOH HOH . J 8 HOH A 134 734 142 HOH HOH . J 8 HOH A 135 735 194 HOH HOH . J 8 HOH A 136 736 170 HOH HOH . J 8 HOH A 137 737 80 HOH HOH . J 8 HOH A 138 738 55 HOH HOH . J 8 HOH A 139 739 86 HOH HOH . J 8 HOH A 140 740 167 HOH HOH . J 8 HOH A 141 741 168 HOH HOH . J 8 HOH A 142 742 67 HOH HOH . J 8 HOH A 143 743 152 HOH HOH . J 8 HOH A 144 744 35 HOH HOH . J 8 HOH A 145 745 131 HOH HOH . J 8 HOH A 146 746 125 HOH HOH . J 8 HOH A 147 747 116 HOH HOH . J 8 HOH A 148 748 93 HOH HOH . J 8 HOH A 149 749 122 HOH HOH . J 8 HOH A 150 750 48 HOH HOH . J 8 HOH A 151 751 74 HOH HOH . J 8 HOH A 152 752 127 HOH HOH . J 8 HOH A 153 753 121 HOH HOH . J 8 HOH A 154 754 129 HOH HOH . J 8 HOH A 155 755 99 HOH HOH . J 8 HOH A 156 756 153 HOH HOH . J 8 HOH A 157 757 162 HOH HOH . J 8 HOH A 158 758 176 HOH HOH . J 8 HOH A 159 759 26 HOH HOH . J 8 HOH A 160 760 10 HOH HOH . J 8 HOH A 161 761 178 HOH HOH . J 8 HOH A 162 762 137 HOH HOH . J 8 HOH A 163 763 78 HOH HOH . J 8 HOH A 164 764 107 HOH HOH . J 8 HOH A 165 765 130 HOH HOH . J 8 HOH A 166 766 133 HOH HOH . J 8 HOH A 167 767 22 HOH HOH . J 8 HOH A 168 768 160 HOH HOH . J 8 HOH A 169 769 89 HOH HOH . J 8 HOH A 170 770 198 HOH HOH . J 8 HOH A 171 771 192 HOH HOH . J 8 HOH A 172 772 81 HOH HOH . J 8 HOH A 173 773 128 HOH HOH . J 8 HOH A 174 774 24 HOH HOH . J 8 HOH A 175 775 97 HOH HOH . J 8 HOH A 176 776 109 HOH HOH . J 8 HOH A 177 777 172 HOH HOH . J 8 HOH A 178 778 190 HOH HOH . J 8 HOH A 179 779 124 HOH HOH . J 8 HOH A 180 780 174 HOH HOH . J 8 HOH A 181 781 61 HOH HOH . J 8 HOH A 182 782 115 HOH HOH . J 8 HOH A 183 783 177 HOH HOH . J 8 HOH A 184 784 171 HOH HOH . J 8 HOH A 185 785 59 HOH HOH . J 8 HOH A 186 786 173 HOH HOH . J 8 HOH A 187 787 186 HOH HOH . J 8 HOH A 188 788 71 HOH HOH . J 8 HOH A 189 789 49 HOH HOH . J 8 HOH A 190 790 189 HOH HOH . J 8 HOH A 191 791 195 HOH HOH . J 8 HOH A 192 792 94 HOH HOH . J 8 HOH A 193 793 105 HOH HOH . J 8 HOH A 194 794 156 HOH HOH . J 8 HOH A 195 795 96 HOH HOH . J 8 HOH A 196 796 179 HOH HOH . J 8 HOH A 197 797 191 HOH HOH . J 8 HOH A 198 798 98 HOH HOH . J 8 HOH A 199 799 95 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 . A . D 4 64.006 3.756 16.227 0.5 25.87 ? C1 GOL 503 A 1 HETATM 2 C C1 GOL . B . D 4 63.176 4.275 15.801 0.5 22.81 ? C1 GOL 503 A 1 HETATM 3 O O1 GOL . A . D 4 64.519 5.096 16.303 0.5 26.55 ? O1 GOL 503 A 1 HETATM 4 O O1 GOL . B . D 4 63.116 5.552 16.452 0.5 23.21 ? O1 GOL 503 A 1 HETATM 5 C C2 GOL . A . D 4 62.564 3.77 16.711 0.5 25.96 ? C2 GOL 503 A 1 HETATM 6 C C2 GOL . B . D 4 62.964 3.141 16.788 0.5 22.68 ? C2 GOL 503 A 1 HETATM 7 O O2 GOL . A . D 4 61.686 4.047 15.624 0.5 27.64 ? O2 GOL 503 A 1 HETATM 8 O O2 GOL . B . D 4 62.493 3.659 18.03 0.5 23.83 ? O2 GOL 503 A 1 HETATM 9 C C3 GOL . A . D 4 62.157 2.438 17.328 0.5 25.28 ? C3 GOL 503 A 1 HETATM 10 C C3 GOL . B . D 4 61.89 2.215 16.259 0.5 22.52 ? C3 GOL 503 A 1 HETATM 11 O O3 GOL . A . D 4 62.472 1.368 16.439 0.5 25.85 ? O3 GOL 503 A 1 HETATM 12 O O3 GOL . B . D 4 62.331 0.845 16.281 0.5 22.44 ? O3 GOL 503 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 357 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 12 #