data_8VAP # _model_server_result.job_id O1Cmo9QE6H9ZZPPfauPs9A _model_server_result.datetime_utc '2025-04-23 10:15:10' _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 8vap # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":403}' # _entry.id 8VAP # _exptl.entry_id 8VAP _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 24.305 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MAGNESIUM ION' _entity.pdbx_number_of_molecules 3 _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 8VAP _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VAP _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 heptameric _pdbx_struct_assembly.oligomeric_count 7 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 7 J N N ? 7 M N N ? 7 R N 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 B SG CYS 67 B CYS 64 1_555 K ZN ZN . B ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc2 B SG CYS 76 B CYS 73 1_555 K ZN ZN . B ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? metalc ? metalc3 B SG CYS 79 B CYS 76 1_555 K ZN ZN . B ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc4 B SG CYS 82 B CYS 79 1_555 K ZN ZN . B ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? metalc ? metalc5 H O3B ADP . B ADP 401 1_555 I BE BEF . B BEF 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.651 ? metalc ? metalc6 H O1B ADP . B ADP 401 1_555 J MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc7 C OG1 THR 55 C THR 52 1_555 M MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.842 ? metalc ? metalc8 C SG CYS 79 C CYS 76 1_555 N ZN ZN . C ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc9 C SG CYS 82 C CYS 79 1_555 N ZN ZN . C ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc10 L O3B ADP . C ADP 401 1_555 O BE BEF . D BEF 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.645 ? metalc ? metalc11 D OG1 THR 55 D THR 52 1_555 R MG MG . D MG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.736 ? metalc ? metalc12 D SG CYS 67 D CYS 64 1_555 S ZN ZN . D ZN 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc13 D SG CYS 76 D CYS 73 1_555 S ZN ZN . D ZN 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc14 D SG CYS 79 D CYS 76 1_555 S ZN ZN . D ZN 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? metalc ? metalc15 D SG CYS 82 D CYS 79 1_555 S ZN ZN . D ZN 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc16 P O3B ADP . D ADP 402 1_555 Q BE BEF . D BEF 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.64 ? metalc ? metalc17 P O1B ADP . D ADP 402 1_555 R MG MG . D MG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? metalc ? metalc18 E SG CYS 53 E CYS 50 1_555 T ZN ZN . E ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc19 E SG CYS 62 E CYS 59 1_555 T ZN ZN . E ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc20 E SG CYS 65 E CYS 62 1_555 T ZN ZN . E ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc21 E SG CYS 68 E CYS 65 1_555 T ZN ZN . E ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? # _chem_comp.formula 'Mg 2' _chem_comp.formula_weight 24.305 _chem_comp.id MG _chem_comp.mon_nstd_flag . _chem_comp.name 'MAGNESIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 8VAP _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 H 5 ADP B 1 401 400 ADP ADP . I 6 BEF B 1 402 401 BEF BEF . J 7 MG B 1 403 412 MG MG . K 8 ZN B 1 404 418 ZN ZN . L 5 ADP C 1 401 402 ADP ADP . M 7 MG C 1 402 413 MG MG . N 8 ZN C 1 403 419 ZN ZN . O 6 BEF D 1 401 403 BEF BEF . P 5 ADP D 1 402 404 ADP ADP . Q 6 BEF D 1 403 405 BEF BEF . R 7 MG D 1 404 414 MG MG . S 8 ZN D 1 405 420 ZN ZN . T 8 ZN E 1 401 421 ZN ZN . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MG _atom_site.label_atom_id MG _atom_site.label_comp_id MG _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id J _atom_site.label_entity_id 7 _atom_site.Cartn_x 127.897 _atom_site.Cartn_y 154.59 _atom_site.Cartn_z 126.285 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 48.07 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 403 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #