data_6FKY # _model_server_result.job_id i-8cMVja1iGlJD-QG9aLsg _model_server_result.datetime_utc '2024-11-06 09:29:24' _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 6fky # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":101}' # _entry.id 6FKY # _exptl.entry_id 6FKY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 240.276 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2~{S})-2-(phenylmethylsulfanyl)butanedioic 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 120 _cell.entry_id 6FKY _cell.length_a 87.134 _cell.length_b 87.134 _cell.length_c 316.677 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6FKY _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 65 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? trimeric 3 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,J,K,L 1 1 B,F,G,H,I,M 2 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 8 _struct_asym.id K _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _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 _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 253 A CYS 274 1_555 B SG CYS 253 B CYS 274 12_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? covale ? covale1 C C GZB 1 C GZB 1 1_555 C N VAL 2 C VAL 2 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.327 ? covale ? covale2 C NZ LYS 4 C LYS 4 1_555 J CAJ E9N . C E9N 101 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.336 ? covale ? covale3 D C GZB 1 I GZB 1 1_555 D N VAL 2 I VAL 2 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.327 ? covale ? covale4 D NZ LYS 4 I LYS 4 1_555 K CAJ DZK . I DZK 101 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.337 ? metalc ? metalc1 A SG CYS 141 A CYS 162 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? metalc ? metalc2 A SG CYS 144 A CYS 165 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc3 A SG CYS 182 A CYS 203 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc4 A SG CYS 187 A CYS 208 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc5 B SG CYS 141 B CYS 162 1_555 F ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? metalc ? metalc6 B SG CYS 144 B CYS 165 1_555 F ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc7 B SG CYS 182 B CYS 203 1_555 F ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc8 B SG CYS 187 B CYS 208 1_555 F ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc9 B OD1 ASP 203 B ASP 224 1_555 H NA NA . B NA 403 12_564 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc10 B OD2 ASP 205 B ASP 226 1_555 H NA NA . B NA 403 12_564 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? # _chem_comp.formula 'C11 H12 O4 S' _chem_comp.formula_weight 240.276 _chem_comp.id DZK _chem_comp.mon_nstd_flag . _chem_comp.name '(2~{S})-2-(phenylmethylsulfanyl)butanedioic 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 CAT CAS DZK doub 83 n y CAT CAU DZK sing 84 n y CAS CAX DZK sing 85 n y CAU CAV DZK doub 86 n y CAX CAW DZK doub 87 n y CAV CAW DZK sing 88 n y OAP CAN DZK doub 89 n n CAW CAR DZK sing 90 n n OAO CAN DZK sing 91 n n CAN CAM DZK sing 92 n n CAR SAQ DZK sing 93 n n SAQ CAM DZK sing 94 n n CAM CAK DZK sing 95 n n CAK CAJ DZK sing 96 n n OAL CAJ DZK doub 97 n n CAK H2 DZK sing 98 n n CAK H3 DZK sing 99 n n CAM H4 DZK sing 100 n n OAO H5 DZK sing 101 n n CAR H6 DZK sing 102 n n CAR H7 DZK sing 103 n n CAV H8 DZK sing 104 n n CAU H9 DZK sing 105 n n CAT H10 DZK sing 106 n n CAS H11 DZK sing 107 n n CAX H12 DZK sing 108 n n CAJ O1 DZK sing 109 n n O1 H1 DZK sing 110 n n # _atom_sites.entry_id 6FKY _atom_sites.fract_transf_matrix[1][1] 0.011477 _atom_sites.fract_transf_matrix[1][2] 0.006626 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013252 _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] 0.003158 _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 E 3 ZN A 1 401 1 ZN ZN . F 3 ZN B 1 401 2 ZN ZN . G 4 EPE B 1 402 1 EPE EPE . H 5 NA B 1 403 1 NA NA . I 6 EDO B 1 404 1 EDO EDO . J 7 E9N C 1 101 10 E9N DRG . K 8 DZK I 1 101 10 DZK BSL . L 9 HOH A 1 501 32 HOH HOH . L 9 HOH A 2 502 11 HOH HOH . L 9 HOH A 3 503 56 HOH HOH . L 9 HOH A 4 504 8 HOH HOH . L 9 HOH A 5 505 7 HOH HOH . L 9 HOH A 6 506 22 HOH HOH . L 9 HOH A 7 507 43 HOH HOH . L 9 HOH A 8 508 16 HOH HOH . L 9 HOH A 9 509 24 HOH HOH . L 9 HOH A 10 510 19 HOH HOH . L 9 HOH A 11 511 40 HOH HOH . L 9 HOH A 12 512 50 HOH HOH . L 9 HOH A 13 513 5 HOH HOH . L 9 HOH A 14 514 45 HOH HOH . L 9 HOH A 15 515 23 HOH HOH . L 9 HOH A 16 516 48 HOH HOH . L 9 HOH A 17 517 13 HOH HOH . L 9 HOH A 18 518 14 HOH HOH . L 9 HOH A 19 519 51 HOH HOH . L 9 HOH A 20 520 9 HOH HOH . L 9 HOH A 21 521 59 HOH HOH . L 9 HOH A 22 522 26 HOH HOH . L 9 HOH A 23 523 52 HOH HOH . L 9 HOH A 24 524 58 HOH HOH . L 9 HOH A 25 525 25 HOH HOH . L 9 HOH A 26 526 4 HOH HOH . L 9 HOH A 27 527 47 HOH HOH . L 9 HOH A 28 528 44 HOH HOH . L 9 HOH A 29 529 38 HOH HOH . L 9 HOH A 30 530 3 HOH HOH . L 9 HOH A 31 531 15 HOH HOH . L 9 HOH A 32 532 42 HOH HOH . L 9 HOH A 33 533 30 HOH HOH . L 9 HOH A 34 534 12 HOH HOH . L 9 HOH A 35 535 17 HOH HOH . M 9 HOH B 1 501 33 HOH HOH . M 9 HOH B 2 502 39 HOH HOH . M 9 HOH B 3 503 46 HOH HOH . M 9 HOH B 4 504 10 HOH HOH . M 9 HOH B 5 505 54 HOH HOH . M 9 HOH B 6 506 55 HOH HOH . M 9 HOH B 7 507 2 HOH HOH . M 9 HOH B 8 508 6 HOH HOH . M 9 HOH B 9 509 29 HOH HOH . M 9 HOH B 10 510 31 HOH HOH . M 9 HOH B 11 511 41 HOH HOH . M 9 HOH B 12 512 27 HOH HOH . M 9 HOH B 13 513 18 HOH HOH . M 9 HOH B 14 514 53 HOH HOH . M 9 HOH B 15 515 1 HOH HOH . M 9 HOH B 16 516 49 HOH HOH . M 9 HOH B 17 517 57 HOH HOH . M 9 HOH B 18 518 36 HOH HOH . M 9 HOH B 19 519 35 HOH HOH . M 9 HOH B 20 520 37 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 CAJ DZK . B . K 8 31.308 24.292 -4.441 0.5 93.96 ? CAJ DZK 101 I 1 HETATM 2 O OAL DZK . B . K 8 30.273 23.686 -4.717 0.5 97.13 ? OAL DZK 101 I 1 HETATM 3 C CAK DZK . B . K 8 32.216 24.84 -5.535 0.5 93.66 ? CAK DZK 101 I 1 HETATM 4 C CAM DZK . B . K 8 31.495 26.008 -6.213 0.5 95.71 ? CAM DZK 101 I 1 HETATM 5 C CAN DZK . B . K 8 32.027 26.16 -7.619 0.5 86.18 ? CAN DZK 101 I 1 HETATM 6 O OAP DZK . B . K 8 31.702 27.201 -8.226 0.5 72.41 ? OAP DZK 101 I 1 HETATM 7 O OAO DZK . B . K 8 32.718 25.214 -8.054 0.5 80.92 ? OAO DZK 101 I 1 HETATM 8 S SAQ DZK . B . K 8 29.745 25.69 -6.335 0.5 116.68 ? SAQ DZK 101 I 1 HETATM 9 C CAR DZK . B . K 8 29.723 24.152 -7.354 0.5 120.3 ? CAR DZK 101 I 1 HETATM 10 C CAW DZK . B . K 8 28.591 23.986 -8.177 0.5 118.46 ? CAW DZK 101 I 1 HETATM 11 C CAV DZK . B . K 8 27.79 25.066 -8.527 0.5 117.08 ? CAV DZK 101 I 1 HETATM 12 C CAU DZK . B . K 8 26.666 24.909 -9.347 0.5 113.46 ? CAU DZK 101 I 1 HETATM 13 C CAT DZK . B . K 8 26.341 23.65 -9.825 0.5 112.94 ? CAT DZK 101 I 1 HETATM 14 C CAS DZK . B . K 8 27.146 22.567 -9.476 0.5 116.43 ? CAS DZK 101 I 1 HETATM 15 C CAX DZK . B . K 8 28.262 22.727 -8.66 0.5 115.57 ? CAX DZK 101 I 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 15 #