data_7XES # _model_server_result.job_id pWQ2r9R1xJpfRno4Zf16VA _model_server_result.datetime_utc '2025-01-10 07:52:59' _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 7xes # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 7XES # _exptl.entry_id 7XES _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 378.338 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2~{R})-3-methyl-2-[(~{E})-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]-3-sulfanyl-butanoic acid' _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 7XES _cell.length_a 102.936 _cell.length_b 102.936 _cell.length_c 132.067 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7XES _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _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 _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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 # _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 'C13 H19 N2 O7 P S' _chem_comp.formula_weight 378.338 _chem_comp.id 9ZN _chem_comp.mon_nstd_flag . _chem_comp.name '(2~{R})-3-methyl-2-[(~{E})-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]-3-sulfanyl-butanoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 CG2 CB 9ZN sing 1 n n CG1 CB 9ZN sing 2 n n CB SG 9ZN sing 3 n n CB CA 9ZN sing 4 n n OAX PAU 9ZN doub 5 n n OAV PAU 9ZN sing 6 n n CA C 9ZN sing 7 n n CA N 9ZN sing 8 n n OXT C 9ZN doub 9 n n PAU OAW 9ZN sing 10 n n PAU OAT 9ZN sing 11 n n C O 9ZN sing 12 n n CAS OAT 9ZN sing 13 n n CAS CAR 9ZN sing 14 n n N CAO 9ZN doub 15 n n CAO CAL 9ZN sing 16 n n CAR CAL 9ZN sing 17 n y CAR CAM 9ZN doub 18 n y CAL CAK 9ZN doub 19 n y CAM NAN 9ZN sing 20 n y CAK OAP 9ZN sing 21 n n CAK CAJ 9ZN sing 22 n y NAN CAJ 9ZN doub 23 n y CAJ CAQ 9ZN sing 24 n n OAV H1 9ZN sing 25 n n OAW H2 9ZN sing 26 n n CAS H3 9ZN sing 27 n n CAS H4 9ZN sing 28 n n CAM H5 9ZN sing 29 n n CAQ H6 9ZN sing 30 n n CAQ H7 9ZN sing 31 n n CAQ H8 9ZN sing 32 n n OAP H9 9ZN sing 33 n n CAO H10 9ZN sing 34 n n CA H14 9ZN sing 35 n n O H15 9ZN sing 36 n n CG2 H16 9ZN sing 37 n n CG2 H17 9ZN sing 38 n n CG2 H18 9ZN sing 39 n n CG1 H19 9ZN sing 40 n n CG1 H20 9ZN sing 41 n n CG1 H21 9ZN sing 42 n n SG H22 9ZN sing 43 n n # _atom_sites.entry_id 7XES _atom_sites.fract_transf_matrix[1][1] 0.009715 _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] 0.009715 _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] 0.007572 _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 IPA A 1 501 502 IPA IPA . C 3 CL A 1 502 503 CL CL . D 4 9ZN A 1 503 601 9ZN 9ZN . E 5 HOH A 1 601 43 HOH HOH . E 5 HOH A 2 602 66 HOH HOH . E 5 HOH A 3 603 53 HOH HOH . E 5 HOH A 4 604 27 HOH HOH . E 5 HOH A 5 605 18 HOH HOH . E 5 HOH A 6 606 12 HOH HOH . E 5 HOH A 7 607 48 HOH HOH . E 5 HOH A 8 608 41 HOH HOH . E 5 HOH A 9 609 13 HOH HOH . E 5 HOH A 10 610 38 HOH HOH . E 5 HOH A 11 611 14 HOH HOH . E 5 HOH A 12 612 57 HOH HOH . E 5 HOH A 13 613 36 HOH HOH . E 5 HOH A 14 614 23 HOH HOH . E 5 HOH A 15 615 39 HOH HOH . E 5 HOH A 16 616 35 HOH HOH . E 5 HOH A 17 617 19 HOH HOH . E 5 HOH A 18 618 28 HOH HOH . E 5 HOH A 19 619 16 HOH HOH . E 5 HOH A 20 620 64 HOH HOH . E 5 HOH A 21 621 40 HOH HOH . E 5 HOH A 22 622 9 HOH HOH . E 5 HOH A 23 623 34 HOH HOH . E 5 HOH A 24 624 6 HOH HOH . E 5 HOH A 25 625 59 HOH HOH . E 5 HOH A 26 626 10 HOH HOH . E 5 HOH A 27 627 20 HOH HOH . E 5 HOH A 28 628 11 HOH HOH . E 5 HOH A 29 629 52 HOH HOH . E 5 HOH A 30 630 55 HOH HOH . E 5 HOH A 31 631 29 HOH HOH . E 5 HOH A 32 632 33 HOH HOH . E 5 HOH A 33 633 65 HOH HOH . E 5 HOH A 34 634 4 HOH HOH . E 5 HOH A 35 635 50 HOH HOH . E 5 HOH A 36 636 1 HOH HOH . E 5 HOH A 37 637 5 HOH HOH . E 5 HOH A 38 638 26 HOH HOH . E 5 HOH A 39 639 49 HOH HOH . E 5 HOH A 40 640 54 HOH HOH . E 5 HOH A 41 641 44 HOH HOH . E 5 HOH A 42 642 21 HOH HOH . E 5 HOH A 43 643 42 HOH HOH . E 5 HOH A 44 644 30 HOH HOH . E 5 HOH A 45 645 61 HOH HOH . E 5 HOH A 46 646 37 HOH HOH . E 5 HOH A 47 647 3 HOH HOH . E 5 HOH A 48 648 8 HOH HOH . E 5 HOH A 49 649 17 HOH HOH . E 5 HOH A 50 650 47 HOH HOH . E 5 HOH A 51 651 31 HOH HOH . E 5 HOH A 52 652 7 HOH HOH . E 5 HOH A 53 653 56 HOH HOH . E 5 HOH A 54 654 25 HOH HOH . E 5 HOH A 55 655 24 HOH HOH . E 5 HOH A 56 656 32 HOH HOH . E 5 HOH A 57 657 2 HOH HOH . E 5 HOH A 58 658 62 HOH HOH . E 5 HOH A 59 659 22 HOH HOH . E 5 HOH A 60 660 15 HOH HOH . E 5 HOH A 61 661 60 HOH HOH . E 5 HOH A 62 662 58 HOH HOH . E 5 HOH A 63 663 46 HOH HOH . E 5 HOH A 64 664 45 HOH HOH . E 5 HOH A 65 665 51 HOH HOH . E 5 HOH A 66 666 63 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 O OAV 9ZN . . . D 4 -22.89 -17.927 -10.095 1 74.46 ? OAV 9ZN 503 A 1 HETATM 2 P PAU 9ZN . . . D 4 -21.856 -19.198 -9.954 1 71.23 ? PAU 9ZN 503 A 1 HETATM 3 O OAX 9ZN . . . D 4 -22.923 -20.367 -9.556 1 81.65 ? OAX 9ZN 503 A 1 HETATM 4 O OAW 9ZN . . . D 4 -20.671 -19.102 -8.996 1 76.39 ? OAW 9ZN 503 A 1 HETATM 5 O OAT 9ZN . . . D 4 -21.469 -19.539 -11.482 1 81.27 ? OAT 9ZN 503 A 1 HETATM 6 C CAS 9ZN . . . D 4 -21.066 -18.344 -12.122 1 83.43 ? CAS 9ZN 503 A 1 HETATM 7 C CAR 9ZN . . . D 4 -20.491 -18.586 -13.334 1 97.55 ? CAR 9ZN 503 A 1 HETATM 8 C CAM 9ZN . . . D 4 -19.129 -18.775 -13.357 1 107.07 ? CAM 9ZN 503 A 1 HETATM 9 N NAN 9ZN . . . D 4 -18.49 -18.975 -14.581 1 112.13 ? NAN 9ZN 503 A 1 HETATM 10 C CAJ 9ZN . . . D 4 -19.156 -19.003 -15.735 1 105.27 ? CAJ 9ZN 503 A 1 HETATM 11 C CAQ 9ZN . . . D 4 -18.443 -19.226 -16.9 1 101.31 ? CAQ 9ZN 503 A 1 HETATM 12 C CAK 9ZN . . . D 4 -20.522 -18.824 -15.696 1 96.08 ? CAK 9ZN 503 A 1 HETATM 13 O OAP 9ZN . . . D 4 -21.184 -18.851 -16.84 1 77.78 ? OAP 9ZN 503 A 1 HETATM 14 C CAL 9ZN . . . D 4 -21.207 -18.62 -14.513 1 101.7 ? CAL 9ZN 503 A 1 HETATM 15 C CAO 9ZN . . . D 4 -22.554 -18.391 -14.478 1 110.68 ? CAO 9ZN 503 A 1 HETATM 16 N N 9ZN . . . D 4 -23.007 -17.754 -15.56 1 98.54 ? N 9ZN 503 A 1 HETATM 17 C CA 9ZN . . . D 4 -24.35 -17.25 -15.598 1 91.11 ? CA 9ZN 503 A 1 HETATM 18 C C 9ZN . . . D 4 -24.983 -17.38 -16.987 1 89.34 ? C 9ZN 503 A 1 HETATM 19 O OXT 9ZN . . . D 4 -25.95 -16.648 -17.168 1 123.63 ? OXT 9ZN 503 A 1 HETATM 20 O O 9ZN . . . D 4 -24.607 -18.227 -17.817 1 70.19 ? O 9ZN 503 A 1 HETATM 21 C CB 9ZN . . . D 4 -24.101 -15.755 -15.175 1 100.69 ? CB 9ZN 503 A 1 HETATM 22 C CG2 9ZN . . . D 4 -25.364 -14.852 -14.981 1 96.56 ? CG2 9ZN 503 A 1 HETATM 23 C CG1 9ZN . . . D 4 -23.091 -15.2 -16.197 1 93.67 ? CG1 9ZN 503 A 1 HETATM 24 S SG 9ZN . . . D 4 -23.344 -15.645 -13.573 1 140.74 ? SG 9ZN 503 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 242 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 24 #