data_7K5B # _model_server_result.job_id y9clZCLNkRxQLRkfMNtgqg _model_server_result.datetime_utc '2024-10-20 08:15:12' _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 7k5b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"S","auth_seq_id":4701}' # _entry.id 7K5B # _exptl.entry_id 7K5B _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 19 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 6 _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 7K5B _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7K5B _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 octadecameric _pdbx_struct_assembly.oligomeric_count 18 _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 _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 ? 19 S N N ? 19 U N N ? 19 BA N N ? 19 DA N N ? 19 IA N N ? 19 JA 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 disulf ? disulf1 N SG CYS 65 N CYS 68 1_555 O SG CYS 89 O CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc1 A OG SER 2160 A SER 2164 1_555 V MG MG . A MG 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? metalc ? metalc2 S O1B ADP . A ADP 4701 1_555 W MG MG . A MG 5002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.867 ? metalc ? metalc3 S O3A ADP . A ADP 4701 1_555 W MG MG . A MG 5002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? metalc ? metalc4 T O3G ATP . A ATP 4801 1_555 V MG MG . A MG 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.467 ? metalc ? metalc5 T O1B ATP . A ATP 4801 1_555 V MG MG . A MG 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? metalc ? metalc6 T O3B ATP . A ATP 4801 1_555 V MG MG . A MG 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.762 ? metalc ? metalc7 U O1B ADP . A ADP 4901 1_555 X MG MG . A MG 5101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.776 ? metalc ? metalc8 U O5' ADP . A ADP 4901 1_555 X MG MG . A MG 5101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? metalc ? metalc9 B OG1 THR 2545 B THR 2545 1_555 Z MG MG . B MG 5101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.657 ? metalc ? metalc10 Y MG MG . B MG 4801 1_555 CA O2G ATP . B ATP 5601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? metalc ? metalc11 Y MG MG . B MG 4801 1_555 CA O3B ATP . B ATP 5601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.982 ? metalc ? metalc12 Y MG MG . B MG 4801 1_555 CA O2A ATP . B ATP 5601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc13 Z MG MG . B MG 5101 1_555 BA O2B ADP . B ADP 5501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? metalc ? metalc14 Z MG MG . B MG 5101 1_555 BA O3A ADP . B ADP 5501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.879 ? metalc ? metalc15 AA MG MG . B MG 5401 1_555 DA O1B ADP . B ADP 5602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.686 ? metalc ? metalc16 AA MG MG . B MG 5401 1_555 DA O1A ADP . B ADP 5602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc17 AA MG MG . B MG 5401 1_555 DA O5' ADP . B ADP 5602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.685 ? metalc ? metalc18 C OG SER 1574 C SER 1691 1_555 FA MG MG . C MG 4301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc19 C OG1 THR 1900 C THR 2017 1_555 GA MG MG . C MG 4501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.7 ? metalc ? metalc20 EA O3G ATP . C ATP 4201 1_555 FA MG MG . C MG 4301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.922 ? metalc ? metalc21 EA O1B ATP . C ATP 4201 1_555 FA MG MG . C MG 4301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? metalc ? metalc22 EA O2A ATP . C ATP 4201 1_555 FA MG MG . C MG 4301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc23 GA MG MG . C MG 4501 1_555 IA O1A ADP . C ADP 4702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.737 ? metalc ? metalc24 GA MG MG . C MG 4501 1_555 IA O2B ADP . C ADP 4702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.926 ? metalc ? metalc25 HA MG MG . C MG 4701 1_555 JA O2A ADP . C ADP 4703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc26 HA MG MG . C MG 4701 1_555 JA O3A ADP . C ADP 4703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.628 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 7K5B _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 S 19 ADP A 1 4701 4701 ADP ADP . T 20 ATP A 1 4801 4801 ATP ATP . U 19 ADP A 1 4901 4901 ADP ADP . V 21 MG A 1 5001 5001 MG MG . W 21 MG A 1 5002 5002 MG MG . X 21 MG A 1 5101 5101 MG MG . Y 21 MG B 1 4801 4801 MG MG . Z 21 MG B 1 5101 5101 MG MG . AA 21 MG B 1 5401 5401 MG MG . BA 19 ADP B 1 5501 5501 ADP ADP . CA 20 ATP B 1 5601 5601 ATP ATP . DA 19 ADP B 1 5602 5602 ADP ADP . EA 20 ATP C 1 4201 4201 ATP ATP . FA 21 MG C 1 4301 4301 MG MG . GA 21 MG C 1 4501 4501 MG MG . HA 21 MG C 1 4701 4701 MG MG . IA 19 ADP C 1 4702 4702 ADP ADP . JA 19 ADP C 1 4703 4703 ADP ADP . # 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 P PB ADP . . . S 19 260.132 132.427 253.186 1 49.68 ? PB ADP 4701 A 1 HETATM 2 O O1B ADP . . . S 19 260.303 132.444 251.692 1 50.2 ? O1B ADP 4701 A 1 HETATM 3 O O2B ADP . . . S 19 259.84 131.083 253.785 1 48.17 ? O2B ADP 4701 A 1 HETATM 4 O O3B ADP . . . S 19 259.284 133.548 253.703 1 50.03 ? O3B ADP 4701 A 1 HETATM 5 P PA ADP . . . S 19 261.841 133.517 255.158 1 47.41 ? PA ADP 4701 A 1 HETATM 6 O O1A ADP . . . S 19 262.388 134.892 254.894 1 52.87 ? O1A ADP 4701 A 1 HETATM 7 O O2A ADP . . . S 19 262.646 132.559 255.976 1 52.81 ? O2A ADP 4701 A 1 HETATM 8 O O3A ADP . . . S 19 261.578 132.829 253.732 1 49.63 ? O3A ADP 4701 A 1 HETATM 9 O O5' ADP . . . S 19 260.466 133.694 255.957 1 49.03 ? O5' ADP 4701 A 1 HETATM 10 C C5' ADP . . . S 19 260.281 132.918 257.137 1 48.34 ? C5' ADP 4701 A 1 HETATM 11 C C4' ADP . . . S 19 260.387 133.782 258.391 1 47.12 ? C4' ADP 4701 A 1 HETATM 12 O O4' ADP . . . S 19 260.737 132.935 259.483 1 47.98 ? O4' ADP 4701 A 1 HETATM 13 C C3' ADP . . . S 19 261.472 134.834 258.306 1 46.32 ? C3' ADP 4701 A 1 HETATM 14 O O3' ADP . . . S 19 260.869 136.132 258.37 1 44.96 ? O3' ADP 4701 A 1 HETATM 15 C C2' ADP . . . S 19 262.413 134.579 259.472 1 45.42 ? C2' ADP 4701 A 1 HETATM 16 O O2' ADP . . . S 19 262.572 135.711 260.326 1 48.36 ? O2' ADP 4701 A 1 HETATM 17 C C1' ADP . . . S 19 261.801 133.454 260.269 1 45.68 ? C1' ADP 4701 A 1 HETATM 18 N N9 ADP . . . S 19 262.805 132.386 260.487 1 45.08 ? N9 ADP 4701 A 1 HETATM 19 C C8 ADP . . . S 19 262.797 131.185 259.889 1 44.49 ? C8 ADP 4701 A 1 HETATM 20 N N7 ADP . . . S 19 263.839 130.421 260.293 1 43.88 ? N7 ADP 4701 A 1 HETATM 21 C C5 ADP . . . S 19 264.542 131.14 261.178 1 44.21 ? C5 ADP 4701 A 1 HETATM 22 C C6 ADP . . . S 19 265.759 130.931 261.991 1 44.06 ? C6 ADP 4701 A 1 HETATM 23 N N6 ADP . . . S 19 266.455 129.771 261.937 1 44.97 ? N6 ADP 4701 A 1 HETATM 24 N N1 ADP . . . S 19 266.153 131.933 262.792 1 43.1 ? N1 ADP 4701 A 1 HETATM 25 C C2 ADP . . . S 19 265.478 133.085 262.855 1 41.93 ? C2 ADP 4701 A 1 HETATM 26 N N3 ADP . . . S 19 264.368 133.343 262.148 1 43.08 ? N3 ADP 4701 A 1 HETATM 27 C C4 ADP . . . S 19 263.854 132.427 261.303 1 44.32 ? C4 ADP 4701 A 1 # _model_server_stats.io_time_ms 403 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 563 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #