data_6WJD # _model_server_result.job_id HzJ2PhqzOs4vqsEiXXe5ww _model_server_result.datetime_utc '2025-07-30 11:52:53' _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 6wjd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"VA","auth_seq_id":401}' # _entry.id 6WJD # _exptl.entry_id 6WJD _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 65.409 _entity.id 34 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ZINC ION' _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 6WJD _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WJD _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 47-meric _pdbx_struct_assembly.oligomeric_count 47 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB _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 ? _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 34 _struct_asym.id VA _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 metalc ? metalc1 I OE2 GLU 51 c GLU 52 1_555 VA ZN ZN . c ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc2 I ND1 HIS 112 c HIS 113 1_555 VA ZN ZN . c ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.586 ? metalc ? metalc3 I OD2 ASP 125 c ASP 126 1_555 VA ZN ZN . c ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? metalc ? metalc4 WA O2G AGS . A AGS 501 1_555 XA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? metalc ? metalc5 WA O3G AGS . A AGS 501 1_555 XA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc6 WA O2B AGS . A AGS 501 1_555 XA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? metalc ? metalc7 YA O2G AGS . B AGS 501 1_555 ZA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? metalc ? metalc8 YA O1B AGS . B AGS 501 1_555 ZA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? metalc ? metalc9 YA O3B AGS . B AGS 501 1_555 ZA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc10 YA O2A AGS . B AGS 501 1_555 ZA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.588 ? metalc ? metalc11 P OG1 THR 213 D THR 213 1_555 CB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.933 ? metalc ? metalc12 BB O2G AGS . D AGS 501 1_555 CB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc13 BB O3G AGS . D AGS 501 1_555 CB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc14 BB O1B AGS . D AGS 501 1_555 CB MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? metalc ? metalc15 Q OG1 THR 195 E THR 181 1_555 EB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc16 DB O2G AGS . E AGS 401 1_555 EB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc17 DB O3G AGS . E AGS 401 1_555 EB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? metalc ? metalc18 DB O1B AGS . E AGS 401 1_555 EB MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc19 R OG1 THR 234 F THR 234 1_555 GB MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.818 ? metalc ? metalc20 R OD2 ASP 286 F ASP 286 1_555 GB MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.854 ? metalc ? metalc21 FB O1B ADP . F ADP 501 1_555 GB MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? # _chem_comp.formula 'Zn 2' _chem_comp.formula_weight 65.409 _chem_comp.id ZN _chem_comp.mon_nstd_flag . _chem_comp.name 'ZINC ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 6WJD _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 VA 34 ZN c 1 401 401 ZN ZN . WA 35 AGS A 1 501 501 AGS AGS . XA 36 MG A 1 502 502 MG MG . YA 35 AGS B 1 501 501 AGS AGS . ZA 36 MG B 1 502 502 MG MG . AB 37 ADP C 1 501 501 ADP ADP . BB 35 AGS D 1 501 501 AGS AGS . CB 36 MG D 1 502 502 MG MG . DB 35 AGS E 1 401 401 AGS AGS . EB 36 MG E 1 402 402 MG MG . FB 37 ADP F 1 501 501 ADP ADP . GB 36 MG F 1 502 502 MG MG . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol ZN _atom_site.label_atom_id ZN _atom_site.label_comp_id ZN _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id VA _atom_site.label_entity_id 34 _atom_site.Cartn_x 454.476 _atom_site.Cartn_y 318.675 _atom_site.Cartn_z 283.004 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 196.62 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id ZN _atom_site.auth_comp_id ZN _atom_site.auth_seq_id 401 _atom_site.auth_asym_id c _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 234 _model_server_stats.parse_time_ms 53 _model_server_stats.create_model_time_ms 166 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #