data_6DNB # _model_server_result.job_id b8pUl2vQ1iClqNfPk1XS7g _model_server_result.datetime_utc '2024-11-13 04:54:52' _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 6dnb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":505}' # _entry.id 6DNB # _exptl.entry_id 6DNB _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 3 _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 120 _cell.entry_id 6DNB _cell.length_a 84.085 _cell.length_b 84.085 _cell.length_c 210.128 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DNB _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 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,D,E,F,G,H _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 D N N ? 3 E N N ? 3 F N 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 6DNB _atom_sites.fract_transf_matrix[1][1] 0.011893 _atom_sites.fract_transf_matrix[1][2] 0.006866 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013733 _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] 0.004759 _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 PG4 A 1 501 1 PG4 PG4 . C 2 PG4 A 1 502 2 PG4 PG4 . D 3 GOL A 1 503 1 GOL GOL . E 3 GOL A 1 504 2 GOL GOL . F 3 GOL A 1 505 3 GOL GOL . G 4 PO4 A 1 506 2001 PO4 PO4 . H 5 HOH A 1 601 115 HOH HOH . H 5 HOH A 2 602 134 HOH HOH . H 5 HOH A 3 603 102 HOH HOH . H 5 HOH A 4 604 190 HOH HOH . H 5 HOH A 5 605 116 HOH HOH . H 5 HOH A 6 606 193 HOH HOH . H 5 HOH A 7 607 91 HOH HOH . H 5 HOH A 8 608 72 HOH HOH . H 5 HOH A 9 609 191 HOH HOH . H 5 HOH A 10 610 82 HOH HOH . H 5 HOH A 11 611 135 HOH HOH . H 5 HOH A 12 612 204 HOH HOH . H 5 HOH A 13 613 154 HOH HOH . H 5 HOH A 14 614 220 HOH HOH . H 5 HOH A 15 615 40 HOH HOH . H 5 HOH A 16 616 65 HOH HOH . H 5 HOH A 17 617 4 HOH HOH . H 5 HOH A 18 618 218 HOH HOH . H 5 HOH A 19 619 222 HOH HOH . H 5 HOH A 20 620 233 HOH HOH . H 5 HOH A 21 621 95 HOH HOH . H 5 HOH A 22 622 148 HOH HOH . H 5 HOH A 23 623 43 HOH HOH . H 5 HOH A 24 624 100 HOH HOH . H 5 HOH A 25 625 111 HOH HOH . H 5 HOH A 26 626 140 HOH HOH . H 5 HOH A 27 627 56 HOH HOH . H 5 HOH A 28 628 66 HOH HOH . H 5 HOH A 29 629 108 HOH HOH . H 5 HOH A 30 630 38 HOH HOH . H 5 HOH A 31 631 180 HOH HOH . H 5 HOH A 32 632 13 HOH HOH . H 5 HOH A 33 633 97 HOH HOH . H 5 HOH A 34 634 221 HOH HOH . H 5 HOH A 35 635 194 HOH HOH . H 5 HOH A 36 636 158 HOH HOH . H 5 HOH A 37 637 231 HOH HOH . H 5 HOH A 38 638 189 HOH HOH . H 5 HOH A 39 639 142 HOH HOH . H 5 HOH A 40 640 22 HOH HOH . H 5 HOH A 41 641 173 HOH HOH . H 5 HOH A 42 642 104 HOH HOH . H 5 HOH A 43 643 141 HOH HOH . H 5 HOH A 44 644 64 HOH HOH . H 5 HOH A 45 645 195 HOH HOH . H 5 HOH A 46 646 29 HOH HOH . H 5 HOH A 47 647 27 HOH HOH . H 5 HOH A 48 648 44 HOH HOH . H 5 HOH A 49 649 124 HOH HOH . H 5 HOH A 50 650 87 HOH HOH . H 5 HOH A 51 651 144 HOH HOH . H 5 HOH A 52 652 35 HOH HOH . H 5 HOH A 53 653 185 HOH HOH . H 5 HOH A 54 654 113 HOH HOH . H 5 HOH A 55 655 28 HOH HOH . H 5 HOH A 56 656 203 HOH HOH . H 5 HOH A 57 657 79 HOH HOH . H 5 HOH A 58 658 137 HOH HOH . H 5 HOH A 59 659 7 HOH HOH . H 5 HOH A 60 660 156 HOH HOH . H 5 HOH A 61 661 8 HOH HOH . H 5 HOH A 62 662 105 HOH HOH . H 5 HOH A 63 663 75 HOH HOH . H 5 HOH A 64 664 1 HOH HOH . H 5 HOH A 65 665 9 HOH HOH . H 5 HOH A 66 666 98 HOH HOH . H 5 HOH A 67 667 225 HOH HOH . H 5 HOH A 68 668 169 HOH HOH . H 5 HOH A 69 669 34 HOH HOH . H 5 HOH A 70 670 96 HOH HOH . H 5 HOH A 71 671 150 HOH HOH . H 5 HOH A 72 672 175 HOH HOH . H 5 HOH A 73 673 236 HOH HOH . H 5 HOH A 74 674 48 HOH HOH . H 5 HOH A 75 675 20 HOH HOH . H 5 HOH A 76 676 74 HOH HOH . H 5 HOH A 77 677 119 HOH HOH . H 5 HOH A 78 678 214 HOH HOH . H 5 HOH A 79 679 31 HOH HOH . H 5 HOH A 80 680 89 HOH HOH . H 5 HOH A 81 681 45 HOH HOH . H 5 HOH A 82 682 145 HOH HOH . H 5 HOH A 83 683 174 HOH HOH . H 5 HOH A 84 684 80 HOH HOH . H 5 HOH A 85 685 32 HOH HOH . H 5 HOH A 86 686 176 HOH HOH . H 5 HOH A 87 687 26 HOH HOH . H 5 HOH A 88 688 215 HOH HOH . H 5 HOH A 89 689 14 HOH HOH . H 5 HOH A 90 690 67 HOH HOH . H 5 HOH A 91 691 94 HOH HOH . H 5 HOH A 92 692 152 HOH HOH . H 5 HOH A 93 693 151 HOH HOH . H 5 HOH A 94 694 62 HOH HOH . H 5 HOH A 95 695 49 HOH HOH . H 5 HOH A 96 696 71 HOH HOH . H 5 HOH A 97 697 23 HOH HOH . H 5 HOH A 98 698 224 HOH HOH . H 5 HOH A 99 699 78 HOH HOH . H 5 HOH A 100 700 54 HOH HOH . H 5 HOH A 101 701 129 HOH HOH . H 5 HOH A 102 702 46 HOH HOH . H 5 HOH A 103 703 36 HOH HOH . H 5 HOH A 104 704 3 HOH HOH . H 5 HOH A 105 705 168 HOH HOH . H 5 HOH A 106 706 121 HOH HOH . H 5 HOH A 107 707 47 HOH HOH . H 5 HOH A 108 708 90 HOH HOH . H 5 HOH A 109 709 61 HOH HOH . H 5 HOH A 110 710 171 HOH HOH . H 5 HOH A 111 711 42 HOH HOH . H 5 HOH A 112 712 120 HOH HOH . H 5 HOH A 113 713 93 HOH HOH . H 5 HOH A 114 714 68 HOH HOH . H 5 HOH A 115 715 133 HOH HOH . H 5 HOH A 116 716 21 HOH HOH . H 5 HOH A 117 717 143 HOH HOH . H 5 HOH A 118 718 84 HOH HOH . H 5 HOH A 119 719 33 HOH HOH . H 5 HOH A 120 720 110 HOH HOH . H 5 HOH A 121 721 230 HOH HOH . H 5 HOH A 122 722 37 HOH HOH . H 5 HOH A 123 723 73 HOH HOH . H 5 HOH A 124 724 52 HOH HOH . H 5 HOH A 125 725 25 HOH HOH . H 5 HOH A 126 726 112 HOH HOH . H 5 HOH A 127 727 101 HOH HOH . H 5 HOH A 128 728 228 HOH HOH . H 5 HOH A 129 729 172 HOH HOH . H 5 HOH A 130 730 2 HOH HOH . H 5 HOH A 131 731 232 HOH HOH . H 5 HOH A 132 732 17 HOH HOH . H 5 HOH A 133 733 146 HOH HOH . H 5 HOH A 134 734 60 HOH HOH . H 5 HOH A 135 735 229 HOH HOH . H 5 HOH A 136 736 136 HOH HOH . H 5 HOH A 137 737 157 HOH HOH . H 5 HOH A 138 738 39 HOH HOH . H 5 HOH A 139 739 125 HOH HOH . H 5 HOH A 140 740 138 HOH HOH . H 5 HOH A 141 741 85 HOH HOH . H 5 HOH A 142 742 12 HOH HOH . H 5 HOH A 143 743 128 HOH HOH . H 5 HOH A 144 744 70 HOH HOH . H 5 HOH A 145 745 207 HOH HOH . H 5 HOH A 146 746 10 HOH HOH . H 5 HOH A 147 747 164 HOH HOH . H 5 HOH A 148 748 63 HOH HOH . H 5 HOH A 149 749 41 HOH HOH . H 5 HOH A 150 750 15 HOH HOH . H 5 HOH A 151 751 196 HOH HOH . H 5 HOH A 152 752 178 HOH HOH . H 5 HOH A 153 753 167 HOH HOH . H 5 HOH A 154 754 114 HOH HOH . H 5 HOH A 155 755 99 HOH HOH . H 5 HOH A 156 756 30 HOH HOH . H 5 HOH A 157 757 181 HOH HOH . H 5 HOH A 158 758 147 HOH HOH . H 5 HOH A 159 759 107 HOH HOH . H 5 HOH A 160 760 197 HOH HOH . H 5 HOH A 161 761 198 HOH HOH . H 5 HOH A 162 762 237 HOH HOH . H 5 HOH A 163 763 18 HOH HOH . H 5 HOH A 164 764 55 HOH HOH . H 5 HOH A 165 765 11 HOH HOH . H 5 HOH A 166 766 131 HOH HOH . H 5 HOH A 167 767 76 HOH HOH . H 5 HOH A 168 768 227 HOH HOH . H 5 HOH A 169 769 86 HOH HOH . H 5 HOH A 170 770 122 HOH HOH . H 5 HOH A 171 771 182 HOH HOH . H 5 HOH A 172 772 58 HOH HOH . H 5 HOH A 173 773 81 HOH HOH . H 5 HOH A 174 774 57 HOH HOH . H 5 HOH A 175 775 59 HOH HOH . H 5 HOH A 176 776 139 HOH HOH . H 5 HOH A 177 777 109 HOH HOH . H 5 HOH A 178 778 202 HOH HOH . H 5 HOH A 179 779 19 HOH HOH . H 5 HOH A 180 780 6 HOH HOH . H 5 HOH A 181 781 24 HOH HOH . H 5 HOH A 182 782 126 HOH HOH . H 5 HOH A 183 783 50 HOH HOH . H 5 HOH A 184 784 106 HOH HOH . H 5 HOH A 185 785 209 HOH HOH . H 5 HOH A 186 786 5 HOH HOH . H 5 HOH A 187 787 213 HOH HOH . H 5 HOH A 188 788 226 HOH HOH . H 5 HOH A 189 789 103 HOH HOH . H 5 HOH A 190 790 179 HOH HOH . H 5 HOH A 191 791 117 HOH HOH . H 5 HOH A 192 792 234 HOH HOH . H 5 HOH A 193 793 51 HOH HOH . H 5 HOH A 194 794 88 HOH HOH . H 5 HOH A 195 795 206 HOH HOH . H 5 HOH A 196 796 235 HOH HOH . H 5 HOH A 197 797 223 HOH HOH . H 5 HOH A 198 798 16 HOH HOH . H 5 HOH A 199 799 199 HOH HOH . H 5 HOH A 200 800 153 HOH HOH . H 5 HOH A 201 801 201 HOH HOH . H 5 HOH A 202 802 217 HOH HOH . H 5 HOH A 203 803 165 HOH HOH . H 5 HOH A 204 804 200 HOH HOH . H 5 HOH A 205 805 69 HOH HOH . H 5 HOH A 206 806 219 HOH HOH . H 5 HOH A 207 807 211 HOH HOH . H 5 HOH A 208 808 183 HOH HOH . H 5 HOH A 209 809 208 HOH HOH . H 5 HOH A 210 810 92 HOH HOH . H 5 HOH A 211 811 155 HOH HOH . H 5 HOH A 212 812 130 HOH HOH . H 5 HOH A 213 813 188 HOH HOH . H 5 HOH A 214 814 216 HOH HOH . H 5 HOH A 215 815 127 HOH HOH . H 5 HOH A 216 816 166 HOH HOH . H 5 HOH A 217 817 118 HOH HOH . H 5 HOH A 218 818 186 HOH HOH . H 5 HOH A 219 819 132 HOH HOH . H 5 HOH A 220 820 161 HOH HOH . H 5 HOH A 221 821 160 HOH HOH . H 5 HOH A 222 822 205 HOH HOH . H 5 HOH A 223 823 159 HOH HOH . H 5 HOH A 224 824 177 HOH HOH . H 5 HOH A 225 825 83 HOH HOH . H 5 HOH A 226 826 170 HOH HOH . H 5 HOH A 227 827 192 HOH HOH . H 5 HOH A 228 828 162 HOH HOH . H 5 HOH A 229 829 149 HOH HOH . H 5 HOH A 230 830 210 HOH HOH . H 5 HOH A 231 831 77 HOH HOH . H 5 HOH A 232 832 212 HOH HOH . H 5 HOH A 233 833 187 HOH HOH . H 5 HOH A 234 834 53 HOH HOH . H 5 HOH A 235 835 163 HOH HOH . H 5 HOH A 236 836 184 HOH HOH . H 5 HOH A 237 837 123 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 . . . F 3 15.326 40.464 25.825 1 54.4 ? C1 GOL 505 A 1 HETATM 2 O O1 GOL . . . F 3 16.496 39.629 25.893 1 55.98 ? O1 GOL 505 A 1 HETATM 3 C C2 GOL . . . F 3 14.694 40.213 24.451 1 50.81 ? C2 GOL 505 A 1 HETATM 4 O O2 GOL . . . F 3 15.729 40.331 23.482 1 60.59 ? O2 GOL 505 A 1 HETATM 5 C C3 GOL . . . F 3 13.537 41.149 24.08 1 49.49 ? C3 GOL 505 A 1 HETATM 6 O O3 GOL . . . F 3 12.813 41.62 25.221 1 39.11 ? O3 GOL 505 A 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #