data_2VN0 # _model_server_result.job_id '_V_gJAz5FGfj7al1AmPQPg' _model_server_result.datetime_utc '2024-11-27 16:52:50' _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 2vn0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 2VN0 # _exptl.entry_id 2VN0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 441.54 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (5R)-5-(4-{[(2R)-6-HYDROXY-2,5,7,8-TETRAMETHYL-3,4-DIHYDRO-2H-CHROMEN-2-YL]METHOXY}BENZYL)-1,3-THIAZOLIDINE-2,4-DIONE _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 2VN0 _cell.length_a 74.2 _cell.length_b 136.09 _cell.length_c 163.24 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2VN0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PQS _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 _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 417 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 435 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id FE _struct_conn.ptnr2_label_comp_id HEM _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id HEM _struct_conn.ptnr2_auth_seq_id 500 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_PDB_id ? _struct_conn.pdbx_dist_value 2.269 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C24 H27 N O5 S' _chem_comp.formula_weight 441.54 _chem_comp.id TDZ _chem_comp.mon_nstd_flag . _chem_comp.name (5R)-5-(4-{[(2R)-6-HYDROXY-2,5,7,8-TETRAMETHYL-3,4-DIHYDRO-2H-CHROMEN-2-YL]METHOXY}BENZYL)-1,3-THIAZOLIDINE-2,4-DIONE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms TROGLITAZONE # 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 CAM CAL TDZ sing 421 n n CAM CBE TDZ sing 422 n n CAM HAM1 TDZ sing 423 n n CAM HAM2 TDZ sing 424 n n CAL CBB TDZ sing 425 n n CAL HAL1 TDZ sing 426 n n CAL HAL2 TDZ sing 427 n n CBB CAZ TDZ doub 428 n y CBB CBC TDZ sing 429 n y CAZ CAC TDZ sing 430 n n CAZ CBA TDZ sing 431 n y CAC HAC1 TDZ sing 432 n n CAC HAC2 TDZ sing 433 n n CAC HAC3 TDZ sing 434 n n CBA OAG TDZ sing 435 n n CBA CAX TDZ doub 436 n y OAG HOAG TDZ sing 437 n n CAX CAY TDZ sing 438 n y CAX CAA TDZ sing 439 n n CAA HAA1 TDZ sing 440 n n CAA HAA2 TDZ sing 441 n n CAA HAA3 TDZ sing 442 n n CAY CBC TDZ doub 443 n y CAY CAB TDZ sing 444 n n CAB HAB1 TDZ sing 445 n n CAB HAB2 TDZ sing 446 n n CAB HAB3 TDZ sing 447 n n CBC OAR TDZ sing 448 n n OAR CBE TDZ sing 449 n n CBE CAN TDZ sing 450 n n CBE CAD TDZ sing 451 n n CAD HAD1 TDZ sing 452 n n CAD HAD2 TDZ sing 453 n n CAD HAD3 TDZ sing 454 n n CAN OAQ TDZ sing 455 n n CAN HAN1 TDZ sing 456 n n CAN HAN2 TDZ sing 457 n n OAQ CAW TDZ sing 458 n n CAW CAK TDZ doub 459 n y CAW CAJ TDZ sing 460 n y CAK CAI TDZ sing 461 n y CAK HAK TDZ sing 462 n n CAI CAV TDZ doub 463 n y CAI HAI TDZ sing 464 n n CAJ CAH TDZ doub 465 n y CAJ HAJ TDZ sing 466 n n CAH CAV TDZ sing 467 n y CAH HAH TDZ sing 468 n n CAV CAO TDZ sing 469 n n CAO CBD TDZ sing 470 n n CAO HAO1 TDZ sing 471 n n CAO HAO2 TDZ sing 472 n n CBD SAS TDZ sing 473 n n CBD CAU TDZ sing 474 n n CBD HBD TDZ sing 475 n n SAS CAT TDZ sing 476 n n CAT OAE TDZ doub 477 n n CAT NAP TDZ sing 478 n n NAP CAU TDZ sing 479 n n NAP HNAP TDZ sing 480 n n CAU OAF TDZ doub 481 n n # _atom_sites.entry_id 2VN0 _atom_sites.fract_transf_matrix[1][1] 0.013477 _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] 0.007348 _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] 0.006126 _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 HEM A 1 500 500 HEM HEM . C 3 TDZ A 1 501 501 TDZ TDZ . D 4 PLM A 1 502 502 PLM PLM . E 5 HOH A 1 2001 2001 HOH HOH . E 5 HOH A 2 2002 2002 HOH HOH . E 5 HOH A 3 2003 2003 HOH HOH . E 5 HOH A 4 2004 2004 HOH HOH . E 5 HOH A 5 2005 2005 HOH HOH . E 5 HOH A 6 2006 2006 HOH HOH . E 5 HOH A 7 2007 2007 HOH HOH . E 5 HOH A 8 2008 2008 HOH HOH . E 5 HOH A 9 2009 2009 HOH HOH . E 5 HOH A 10 2010 2010 HOH HOH . E 5 HOH A 11 2011 2011 HOH HOH . E 5 HOH A 12 2012 2012 HOH HOH . E 5 HOH A 13 2013 2013 HOH HOH . E 5 HOH A 14 2014 2014 HOH HOH . E 5 HOH A 15 2015 2015 HOH HOH . E 5 HOH A 16 2016 2016 HOH HOH . E 5 HOH A 17 2017 2017 HOH HOH . E 5 HOH A 18 2018 2018 HOH HOH . E 5 HOH A 19 2019 2019 HOH HOH . E 5 HOH A 20 2020 2020 HOH HOH . E 5 HOH A 21 2021 2021 HOH HOH . E 5 HOH A 22 2022 2022 HOH HOH . E 5 HOH A 23 2023 2023 HOH HOH . E 5 HOH A 24 2024 2024 HOH HOH . E 5 HOH A 25 2025 2025 HOH HOH . E 5 HOH A 26 2026 2026 HOH HOH . E 5 HOH A 27 2027 2027 HOH HOH . E 5 HOH A 28 2028 2028 HOH HOH . E 5 HOH A 29 2029 2029 HOH HOH . E 5 HOH A 30 2030 2030 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 CAM TDZ . . . C 3 46.857 13.356 -24.174 1 79.24 ? CAM TDZ 501 A 1 HETATM 2 C CAL TDZ . . . C 3 46.294 14.138 -25.361 1 78.72 ? CAL TDZ 501 A 1 HETATM 3 C CBB TDZ . . . C 3 46.311 13.275 -26.624 1 77.8 ? CBB TDZ 501 A 1 HETATM 4 C CAZ TDZ . . . C 3 46.137 13.854 -27.879 1 77.06 ? CAZ TDZ 501 A 1 HETATM 5 C CAC TDZ . . . C 3 46.024 15.376 -27.991 1 76.75 ? CAC TDZ 501 A 1 HETATM 6 C CBA TDZ . . . C 3 46.076 13.083 -29.034 1 76.4 ? CBA TDZ 501 A 1 HETATM 7 O OAG TDZ . . . C 3 45.928 13.676 -30.25 1 73.56 ? OAG TDZ 501 A 1 HETATM 8 C CAX TDZ . . . C 3 46.189 11.7 -28.946 1 76.14 ? CAX TDZ 501 A 1 HETATM 9 C CAA TDZ . . . C 3 46.126 10.843 -30.213 1 74.34 ? CAA TDZ 501 A 1 HETATM 10 C CAY TDZ . . . C 3 46.368 11.109 -27.703 1 76.27 ? CAY TDZ 501 A 1 HETATM 11 C CAB TDZ . . . C 3 46.489 9.588 -27.587 1 76.85 ? CAB TDZ 501 A 1 HETATM 12 C CBC TDZ . . . C 3 46.436 11.891 -26.552 1 76.99 ? CBC TDZ 501 A 1 HETATM 13 O OAR TDZ . . . C 3 46.746 11.263 -25.384 1 78.91 ? OAR TDZ 501 A 1 HETATM 14 C CBE TDZ . . . C 3 46.306 11.929 -24.196 1 79.89 ? CBE TDZ 501 A 1 HETATM 15 C CAD TDZ . . . C 3 44.776 11.948 -24.179 1 78.68 ? CAD TDZ 501 A 1 HETATM 16 C CAN TDZ . . . C 3 46.782 11.165 -22.967 1 82.04 ? CAN TDZ 501 A 1 HETATM 17 O OAQ TDZ . . . C 3 48.173 11.288 -22.62 1 84.55 ? OAQ TDZ 501 A 1 HETATM 18 C CAW TDZ . . . C 3 49.024 10.836 -23.582 1 85.89 ? CAW TDZ 501 A 1 HETATM 19 C CAK TDZ . . . C 3 49.334 9.488 -23.691 1 85.74 ? CAK TDZ 501 A 1 HETATM 20 C CAI TDZ . . . C 3 50.177 9.037 -24.701 1 85.63 ? CAI TDZ 501 A 1 HETATM 21 C CAJ TDZ . . . C 3 49.569 11.743 -24.488 1 86.44 ? CAJ TDZ 501 A 1 HETATM 22 C CAH TDZ . . . C 3 50.412 11.293 -25.497 1 86.31 ? CAH TDZ 501 A 1 HETATM 23 C CAV TDZ . . . C 3 50.714 9.945 -25.613 1 85.18 ? CAV TDZ 501 A 1 HETATM 24 C CAO TDZ . . . C 3 51.591 9.488 -26.781 1 84.76 ? CAO TDZ 501 A 1 HETATM 25 C CBD TDZ . . . C 3 51.299 8.059 -27.246 1 84.68 ? CBD TDZ 501 A 1 HETATM 26 S SAS TDZ . . . C 3 49.564 7.765 -27.731 1 83.41 ? SAS TDZ 501 A 1 HETATM 27 C CAT TDZ . . . C 3 49.982 7.206 -29.331 1 84.12 ? CAT TDZ 501 A 1 HETATM 28 O OAE TDZ . . . C 3 49.17 6.747 -30.135 1 83.69 ? OAE TDZ 501 A 1 HETATM 29 N NAP TDZ . . . C 3 51.29 7.308 -29.566 1 84.47 ? NAP TDZ 501 A 1 HETATM 30 C CAU TDZ . . . C 3 52.031 7.789 -28.564 1 84.83 ? CAU TDZ 501 A 1 HETATM 31 O OAF TDZ . . . C 3 53.248 7.941 -28.675 1 85.12 ? OAF TDZ 501 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 248 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #