data_8WS3 # _model_server_result.job_id 2jAubcjEU2UfbNl9FXzWRQ _model_server_result.datetime_utc '2024-10-24 06:23:00' _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 8ws3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 8WS3 # _exptl.entry_id 8WS3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 190.152 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5,8-bis(oxidanyl)naphthalene-1,4-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 90.17 _cell.angle_gamma 90 _cell.entry_id 8WS3 _cell.length_a 123.562 _cell.length_b 80.994 _cell.length_c 63.692 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8WS3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 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 _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 D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 145 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 145 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id D _struct_conn.ptnr2_label_atom_id C04 _struct_conn.ptnr2_label_comp_id X7F _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id X7F _struct_conn.ptnr2_auth_seq_id 401 _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 1.766 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C10 H6 O4' _chem_comp.formula_weight 190.152 _chem_comp.id X7F _chem_comp.mon_nstd_flag . _chem_comp.name 5,8-bis(oxidanyl)naphthalene-1,4-dione _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 O01 C02 X7F doub 401 n n O09 C08 X7F sing 402 n n C02 C03 X7F sing 403 n n C02 C07 X7F sing 404 n n C03 C04 X7F doub 405 n n C08 C07 X7F doub 406 n y C08 C10 X7F sing 407 n y C07 C06 X7F sing 408 n y C10 C11 X7F doub 409 n y C04 C05 X7F sing 410 n n C06 C05 X7F sing 411 n n C06 C12 X7F doub 412 n y C11 C12 X7F sing 413 n y C05 O14 X7F doub 414 n n C12 O13 X7F sing 415 n n C03 H1 X7F sing 416 n n C04 H2 X7F sing 417 n n C10 H3 X7F sing 418 n n C11 H4 X7F sing 419 n n O09 H5 X7F sing 420 n n O13 H6 X7F sing 421 n n # _atom_sites.entry_id 8WS3 _atom_sites.fract_transf_matrix[1][1] 0.008093 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000024 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012347 _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] 0.015701 _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 C 2 PEG B 1 401 402 PEG PEG . D 3 X7F A 1 401 401 X7F 2 . E 2 PEG A 1 402 403 PEG PEG . F 4 DMS A 1 403 404 DMS DMS . G 5 HOH B 1 501 11 HOH HOH . G 5 HOH B 2 502 2 HOH HOH . G 5 HOH B 3 503 30 HOH HOH . G 5 HOH B 4 504 72 HOH HOH . G 5 HOH B 5 505 63 HOH HOH . G 5 HOH B 6 506 1 HOH HOH . G 5 HOH B 7 507 46 HOH HOH . G 5 HOH B 8 508 84 HOH HOH . G 5 HOH B 9 509 20 HOH HOH . G 5 HOH B 10 510 74 HOH HOH . G 5 HOH B 11 511 12 HOH HOH . G 5 HOH B 12 512 75 HOH HOH . G 5 HOH B 13 513 31 HOH HOH . G 5 HOH B 14 514 22 HOH HOH . G 5 HOH B 15 515 108 HOH HOH . G 5 HOH B 16 516 67 HOH HOH . G 5 HOH B 17 517 21 HOH HOH . G 5 HOH B 18 518 88 HOH HOH . G 5 HOH B 19 519 47 HOH HOH . G 5 HOH B 20 520 26 HOH HOH . G 5 HOH B 21 521 126 HOH HOH . G 5 HOH B 22 522 9 HOH HOH . G 5 HOH B 23 523 71 HOH HOH . G 5 HOH B 24 524 7 HOH HOH . G 5 HOH B 25 525 60 HOH HOH . G 5 HOH B 26 526 77 HOH HOH . G 5 HOH B 27 527 87 HOH HOH . G 5 HOH B 28 528 105 HOH HOH . G 5 HOH B 29 529 19 HOH HOH . G 5 HOH B 30 530 100 HOH HOH . G 5 HOH B 31 531 48 HOH HOH . G 5 HOH B 32 532 81 HOH HOH . G 5 HOH B 33 533 119 HOH HOH . G 5 HOH B 34 534 122 HOH HOH . G 5 HOH B 35 535 97 HOH HOH . G 5 HOH B 36 536 101 HOH HOH . G 5 HOH B 37 537 73 HOH HOH . G 5 HOH B 38 538 83 HOH HOH . G 5 HOH B 39 539 112 HOH HOH . G 5 HOH B 40 540 86 HOH HOH . G 5 HOH B 41 541 10 HOH HOH . G 5 HOH B 42 542 115 HOH HOH . G 5 HOH B 43 543 4 HOH HOH . G 5 HOH B 44 544 5 HOH HOH . G 5 HOH B 45 545 107 HOH HOH . G 5 HOH B 46 546 106 HOH HOH . G 5 HOH B 47 547 111 HOH HOH . G 5 HOH B 48 548 114 HOH HOH . G 5 HOH B 49 549 82 HOH HOH . G 5 HOH B 50 550 91 HOH HOH . G 5 HOH B 51 551 99 HOH HOH . G 5 HOH B 52 552 93 HOH HOH . H 5 HOH A 1 501 6 HOH HOH . H 5 HOH A 2 502 96 HOH HOH . H 5 HOH A 3 503 3 HOH HOH . H 5 HOH A 4 504 62 HOH HOH . H 5 HOH A 5 505 76 HOH HOH . H 5 HOH A 6 506 40 HOH HOH . H 5 HOH A 7 507 24 HOH HOH . H 5 HOH A 8 508 52 HOH HOH . H 5 HOH A 9 509 8 HOH HOH . H 5 HOH A 10 510 23 HOH HOH . H 5 HOH A 11 511 41 HOH HOH . H 5 HOH A 12 512 36 HOH HOH . H 5 HOH A 13 513 15 HOH HOH . H 5 HOH A 14 514 16 HOH HOH . H 5 HOH A 15 515 59 HOH HOH . H 5 HOH A 16 516 51 HOH HOH . H 5 HOH A 17 517 80 HOH HOH . H 5 HOH A 18 518 14 HOH HOH . H 5 HOH A 19 519 58 HOH HOH . H 5 HOH A 20 520 64 HOH HOH . H 5 HOH A 21 521 17 HOH HOH . H 5 HOH A 22 522 68 HOH HOH . H 5 HOH A 23 523 110 HOH HOH . H 5 HOH A 24 524 39 HOH HOH . H 5 HOH A 25 525 79 HOH HOH . H 5 HOH A 26 526 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 C02 X7F . . . D 3 48.727 17.09 17.537 1 64.39 ? C02 X7F 401 A 1 HETATM 2 C C03 X7F . . . D 3 47.344 16.691 17.993 1 62.16 ? C03 X7F 401 A 1 HETATM 3 C C04 X7F . . . D 3 47.166 16.016 19.31 1 60.24 ? C04 X7F 401 A 1 HETATM 4 C C05 X7F . . . D 3 48.363 15.728 20.184 1 60.92 ? C05 X7F 401 A 1 HETATM 5 C C06 X7F . . . D 3 49.79 16.142 19.699 1 65.21 ? C06 X7F 401 A 1 HETATM 6 C C07 X7F . . . D 3 49.965 16.791 18.444 1 64.55 ? C07 X7F 401 A 1 HETATM 7 C C08 X7F . . . D 3 51.249 17.162 18.023 1 66.62 ? C08 X7F 401 A 1 HETATM 8 C C10 X7F . . . D 3 52.359 16.893 18.837 1 68.33 ? C10 X7F 401 A 1 HETATM 9 C C11 X7F . . . D 3 52.184 16.247 20.09 1 67.64 ? C11 X7F 401 A 1 HETATM 10 C C12 X7F . . . D 3 50.899 15.876 20.515 1 66.14 ? C12 X7F 401 A 1 HETATM 11 O O01 X7F . . . D 3 48.876 17.63 16.492 1 67.12 ? O01 X7F 401 A 1 HETATM 12 O O09 X7F . . . D 3 51.423 17.798 16.789 1 71.54 ? O09 X7F 401 A 1 HETATM 13 O O13 X7F . . . D 3 50.71 15.236 21.75 1 64.34 ? O13 X7F 401 A 1 HETATM 14 O O14 X7F . . . D 3 48.229 15.189 21.234 1 59.95 ? O14 X7F 401 A 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #