data_7YJ8 # _model_server_result.job_id duGl85M2DyKjXR5taPeN7A _model_server_result.datetime_utc '2024-11-28 07:15:10' _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 7yj8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 7YJ8 # _exptl.entry_id 7YJ8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 256.253 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description pinocembrin _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 7YJ8 _cell.length_a 67.612 _cell.length_b 72.572 _cell.length_c 83.555 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YJ8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 2 21 21' # _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 _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_545 x,-y-1,-z 1 0 0 0 -1 0 0 0 -1 0 -72.572 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 'C15 H12 O4' _chem_comp.formula_weight 256.253 _chem_comp.id KML _chem_comp.mon_nstd_flag . _chem_comp.name pinocembrin _chem_comp.type non-polymer _chem_comp.pdbx_synonyms (2~{S})-5,7-bis(oxidanyl)-2-phenyl-2,3-dihydrochromen-4-one # 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 O2 C12 KML sing 173 n n C8 C9 KML doub 174 n y C8 C7 KML sing 175 n y C11 C12 KML doub 176 n y C11 C2 KML sing 177 n y C9 C4 KML sing 178 n y C7 C6 KML doub 179 n y C12 C13 KML sing 180 n y O1 C2 KML sing 181 n n O1 C3 KML sing 182 n n C2 C1 KML doub 183 n y C4 C3 KML sing 184 n n C4 C5 KML doub 185 n y C6 C5 KML sing 186 n y C13 C14 KML doub 187 n y C3 C10 KML sing 188 n n C1 C14 KML sing 189 n y C1 C KML sing 190 n n C14 O3 KML sing 191 n n C10 C KML sing 192 n n C O KML doub 193 n n C3 H1 KML sing 194 n n O2 H2 KML sing 195 n n O3 H3 KML sing 196 n n C10 H4 KML sing 197 n n C10 H5 KML sing 198 n n C9 H6 KML sing 199 n n C8 H7 KML sing 200 n n C7 H8 KML sing 201 n n C6 H9 KML sing 202 n n C5 H10 KML sing 203 n n C11 H11 KML sing 204 n n C13 H12 KML sing 205 n n # _atom_sites.entry_id 7YJ8 _atom_sites.fract_transf_matrix[1][1] 0.01479 _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] 0.013779 _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] 0.011968 _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 KML A 1 501 421 KML PIN . C 3 HOH A 1 601 74 HOH HOH . C 3 HOH A 2 602 2 HOH HOH . C 3 HOH A 3 603 14 HOH HOH . C 3 HOH A 4 604 69 HOH HOH . C 3 HOH A 5 605 28 HOH HOH . C 3 HOH A 6 606 68 HOH HOH . C 3 HOH A 7 607 25 HOH HOH . C 3 HOH A 8 608 7 HOH HOH . C 3 HOH A 9 609 39 HOH HOH . C 3 HOH A 10 610 60 HOH HOH . C 3 HOH A 11 611 3 HOH HOH . C 3 HOH A 12 612 61 HOH HOH . C 3 HOH A 13 613 17 HOH HOH . C 3 HOH A 14 614 62 HOH HOH . C 3 HOH A 15 615 1 HOH HOH . C 3 HOH A 16 616 6 HOH HOH . C 3 HOH A 17 617 57 HOH HOH . C 3 HOH A 18 618 5 HOH HOH . C 3 HOH A 19 619 23 HOH HOH . C 3 HOH A 20 620 52 HOH HOH . C 3 HOH A 21 621 16 HOH HOH . C 3 HOH A 22 622 65 HOH HOH . C 3 HOH A 23 623 24 HOH HOH . C 3 HOH A 24 624 10 HOH HOH . C 3 HOH A 25 625 19 HOH HOH . C 3 HOH A 26 626 55 HOH HOH . C 3 HOH A 27 627 12 HOH HOH . C 3 HOH A 28 628 26 HOH HOH . C 3 HOH A 29 629 77 HOH HOH . C 3 HOH A 30 630 40 HOH HOH . C 3 HOH A 31 631 58 HOH HOH . C 3 HOH A 32 632 20 HOH HOH . C 3 HOH A 33 633 66 HOH HOH . C 3 HOH A 34 634 9 HOH HOH . C 3 HOH A 35 635 64 HOH HOH . C 3 HOH A 36 636 54 HOH HOH . C 3 HOH A 37 637 4 HOH HOH . C 3 HOH A 38 638 59 HOH HOH . C 3 HOH A 39 639 18 HOH HOH . C 3 HOH A 40 640 63 HOH HOH . C 3 HOH A 41 641 34 HOH HOH . C 3 HOH A 42 642 70 HOH HOH . C 3 HOH A 43 643 21 HOH HOH . C 3 HOH A 44 644 48 HOH HOH . C 3 HOH A 45 645 35 HOH HOH . C 3 HOH A 46 646 51 HOH HOH . C 3 HOH A 47 647 8 HOH HOH . C 3 HOH A 48 648 44 HOH HOH . C 3 HOH A 49 649 15 HOH HOH . C 3 HOH A 50 650 76 HOH HOH . C 3 HOH A 51 651 27 HOH HOH . C 3 HOH A 52 652 42 HOH HOH . C 3 HOH A 53 653 36 HOH HOH . C 3 HOH A 54 654 86 HOH HOH . C 3 HOH A 55 655 56 HOH HOH . C 3 HOH A 56 656 31 HOH HOH . C 3 HOH A 57 657 13 HOH HOH . C 3 HOH A 58 658 41 HOH HOH . C 3 HOH A 59 659 43 HOH HOH . C 3 HOH A 60 660 11 HOH HOH . C 3 HOH A 61 661 45 HOH HOH . C 3 HOH A 62 662 53 HOH HOH . C 3 HOH A 63 663 38 HOH HOH . C 3 HOH A 64 664 67 HOH HOH . C 3 HOH A 65 665 30 HOH HOH . C 3 HOH A 66 666 37 HOH HOH . C 3 HOH A 67 667 22 HOH HOH . C 3 HOH A 68 668 75 HOH HOH . C 3 HOH A 69 669 80 HOH HOH . C 3 HOH A 70 670 81 HOH HOH . C 3 HOH A 71 671 29 HOH HOH . C 3 HOH A 72 672 72 HOH HOH . C 3 HOH A 73 673 82 HOH HOH . C 3 HOH A 74 674 71 HOH HOH . C 3 HOH A 75 675 46 HOH HOH . C 3 HOH A 76 676 50 HOH HOH . C 3 HOH A 77 677 84 HOH HOH . C 3 HOH A 78 678 79 HOH HOH . C 3 HOH A 79 679 83 HOH HOH . C 3 HOH A 80 680 33 HOH HOH . C 3 HOH A 81 681 73 HOH HOH . C 3 HOH A 82 682 49 HOH HOH . C 3 HOH A 83 683 47 HOH HOH . C 3 HOH A 84 684 32 HOH HOH . C 3 HOH A 85 685 85 HOH HOH . C 3 HOH A 86 686 78 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 KML . . . B 2 -8.294 -24.342 4.321 1 57.58 ? C1 KML 501 A 1 HETATM 2 C C2 KML . . . B 2 -9.371 -24.263 5.102 1 60.08 ? C2 KML 501 A 1 HETATM 3 C C3 KML . . . B 2 -8.262 -25.566 6.726 1 49.17 ? C3 KML 501 A 1 HETATM 4 C C4 KML . . . B 2 -8.289 -25.911 8.245 1 41.2 ? C4 KML 501 A 1 HETATM 5 O O1 KML . . . B 2 -9.349 -24.802 6.406 1 58.93 ? O1 KML 501 A 1 HETATM 6 O O2 KML . . . B 2 -11.748 -22.463 2.904 1 54.89 ? O2 KML 501 A 1 HETATM 7 O O3 KML . . . B 2 -7.032 -23.972 2.274 1 64.94 ? O3 KML 501 A 1 HETATM 8 O O KML . . . B 2 -5.935 -24.433 4.222 1 55.28 ? O KML 501 A 1 HETATM 9 C C KML . . . B 2 -7.04 -25.021 4.841 1 52.63 ? C KML 501 A 1 HETATM 10 C C10 KML . . . B 2 -7.045 -24.833 6.35 1 50.38 ? C10 KML 501 A 1 HETATM 11 C C9 KML . . . B 2 -8.551 -24.956 9.182 1 45.83 ? C9 KML 501 A 1 HETATM 12 C C8 KML . . . B 2 -8.563 -25.323 10.504 1 51.85 ? C8 KML 501 A 1 HETATM 13 C C7 KML . . . B 2 -8.322 -26.61 10.883 1 48.32 ? C7 KML 501 A 1 HETATM 14 C C6 KML . . . B 2 -8.037 -27.559 9.909 1 43.83 ? C6 KML 501 A 1 HETATM 15 C C5 KML . . . B 2 -8.02 -27.196 8.625 1 42.57 ? C5 KML 501 A 1 HETATM 16 C C11 KML . . . B 2 -10.513 -23.638 4.626 1 57.73 ? C11 KML 501 A 1 HETATM 17 C C12 KML . . . B 2 -10.524 -23.138 3.39 1 54.25 ? C12 KML 501 A 1 HETATM 18 C C13 KML . . . B 2 -9.383 -23.23 2.576 1 56.26 ? C13 KML 501 A 1 HETATM 19 C C14 KML . . . B 2 -8.29 -23.832 3.051 1 61.83 ? C14 KML 501 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 19 #