data_8APA # _model_server_result.job_id p5LAmoAx4spiGld8q2Spvg _model_server_result.datetime_utc '2024-12-18 19:40:11' _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 8apa # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"WA","auth_seq_id":601}' # _entry.id 8APA # _exptl.entry_id 8APA _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 28 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 8APA _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8APA _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 42-meric _pdbx_struct_assembly.oligomeric_count 42 _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,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB,SB,TB,UB,VB,WB,XB,YB,ZB _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 28 _struct_asym.id WA _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 covale ? covale1 CA C AME 1 e AME 1 1_555 CA N GLN 2 e GLN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? metalc ? metalc1 A OG1 THR 213 A1 THR 213 1_555 RA MG MG . A1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc2 QA O2G ATP . A1 ATP 601 1_555 RA MG MG . A1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.93 ? metalc ? metalc3 QA O2B ATP . A1 ATP 601 1_555 RA MG MG . A1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc4 B OG1 THR 213 B1 THR 213 1_555 TA MG MG . B1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? metalc ? metalc5 SA O2G ATP . B1 ATP 601 1_555 TA MG MG . B1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.925 ? metalc ? metalc6 SA O2B ATP . B1 ATP 601 1_555 TA MG MG . B1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? metalc ? metalc7 C OG1 THR 213 C1 THR 213 1_555 VA MG MG . C1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.92 ? metalc ? metalc8 UA O2G ATP . C1 ATP 601 1_555 VA MG MG . C1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.913 ? metalc ? metalc9 UA O2B ATP . C1 ATP 601 1_555 VA MG MG . C1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.937 ? metalc ? metalc10 D OG1 THR 190 D1 THR 190 1_555 XA MG MG . D1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? metalc ? metalc11 WA O3B ADP . D1 ADP 601 1_555 XA MG MG . D1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.904 ? metalc ? metalc12 F OG1 THR 190 F1 THR 190 1_555 ZA MG MG . F1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.955 ? metalc ? metalc13 YA O2G ATP . F1 ATP 601 1_555 ZA MG MG . F1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.895 ? metalc ? metalc14 YA O2B ATP . F1 ATP 601 1_555 ZA MG MG . F1 MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? # _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 8APA _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 QA 26 ATP A1 1 601 1 ATP ATP . RA 27 MG A1 1 602 2 MG MG . SA 26 ATP B1 1 601 3 ATP ATP . TA 27 MG B1 1 602 4 MG MG . UA 26 ATP C1 1 601 5 ATP ATP . VA 27 MG C1 1 602 6 MG MG . WA 28 ADP D1 1 601 1 ADP ADP . XA 27 MG D1 1 602 2 MG MG . YA 26 ATP F1 1 601 7 ATP ATP . ZA 27 MG F1 1 602 8 MG MG . AB 29 UTP H1 1 201 1 UTP UTP . BB 30 CDL L 1 101 12 CDL CDL . CB 31 PEE M 1 201 2 PEE PEE . DB 30 CDL c 1 201 3 CDL CDL . EB 30 CDL e 1 401 2 CDL CDL . FB 30 CDL e 1 402 5 CDL CDL . GB 30 CDL e 1 403 7 CDL CDL . HB 30 CDL e 1 404 10 CDL CDL . IB 30 CDL e 1 405 11 CDL CDL . JB 32 LMT e 1 406 1 LMT LMT . KB 33 Q7G e 1 407 2 Q7G GD0 . LB 30 CDL f 1 201 9 CDL CDL . MB 31 PEE f 1 202 1 PEE PEE . NB 34 PC1 f 1 203 1 PC1 PC1 . OB 34 PC1 f 1 204 2 PC1 PC1 . PB 34 PC1 i 1 201 4 PC1 PC1 . QB 30 CDL j 1 201 4 CDL CDL . RB 34 PC1 j 1 202 3 PC1 PC1 . SB 32 LMT j 1 203 2 LMT LMT . TB 30 CDL l 1 101 12 CDL CDL . UB 30 CDL m 1 201 1 CDL CDL . VB 31 PEE m 1 202 2 PEE PEE . WB 33 Q7G n 1 201 1 Q7G GD0 . XB 30 CDL p 1 201 1 CDL CDL . YB 30 CDL q 1 101 6 CDL CDL . ZB 30 CDL q 1 102 8 CDL CDL . # 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 . . . WA 28 327.152 208.709 291.616 1 35.27 ? PB ADP 601 D1 1 HETATM 2 O O1B ADP . . . WA 28 327.246 207.39 290.848 1 35.27 ? O1B ADP 601 D1 1 HETATM 3 O O2B ADP . . . WA 28 328.31 209.615 291.195 1 35.27 ? O2B ADP 601 D1 1 HETATM 4 O O3B ADP . . . WA 28 327.042 208.536 293.089 1 35.27 ? O3B ADP 601 D1 1 HETATM 5 P PA ADP . . . WA 28 324.802 210.418 291.684 1 35.27 ? PA ADP 601 D1 1 HETATM 6 O O1A ADP . . . WA 28 323.497 209.766 291.894 1 35.27 ? O1A ADP 601 D1 1 HETATM 7 O O2A ADP . . . WA 28 325.449 210.969 292.949 1 35.27 ? O2A ADP 601 D1 1 HETATM 8 O O3A ADP . . . WA 28 325.853 209.421 291.026 1 35.27 ? O3A ADP 601 D1 1 HETATM 9 O O5' ADP . . . WA 28 324.684 211.649 290.654 1 35.27 ? O5' ADP 601 D1 1 HETATM 10 C C5' ADP . . . WA 28 323.615 212.61 290.76 1 35.27 ? C5' ADP 601 D1 1 HETATM 11 C C4' ADP . . . WA 28 323.503 213.389 289.474 1 35.27 ? C4' ADP 601 D1 1 HETATM 12 O O4' ADP . . . WA 28 323.342 212.472 288.368 1 35.27 ? O4' ADP 601 D1 1 HETATM 13 C C3' ADP . . . WA 28 322.313 214.341 289.402 1 35.27 ? C3' ADP 601 D1 1 HETATM 14 O O3' ADP . . . WA 28 322.663 215.645 289.852 1 35.27 ? O3' ADP 601 D1 1 HETATM 15 C C2' ADP . . . WA 28 321.978 214.34 287.913 1 35.27 ? C2' ADP 601 D1 1 HETATM 16 O O2' ADP . . . WA 28 322.831 215.216 287.185 1 35.27 ? O2' ADP 601 D1 1 HETATM 17 C C1' ADP . . . WA 28 322.266 212.886 287.546 1 35.27 ? C1' ADP 601 D1 1 HETATM 18 N N9 ADP . . . WA 28 321.147 211.979 287.772 1 35.27 ? N9 ADP 601 D1 1 HETATM 19 C C8 ADP . . . WA 28 321.167 210.815 288.494 1 35.27 ? C8 ADP 601 D1 1 HETATM 20 N N7 ADP . . . WA 28 320.018 210.186 288.527 1 35.27 ? N7 ADP 601 D1 1 HETATM 21 C C5 ADP . . . WA 28 319.18 210.995 287.775 1 35.27 ? C5 ADP 601 D1 1 HETATM 22 C C6 ADP . . . WA 28 317.82 210.888 287.427 1 35.27 ? C6 ADP 601 D1 1 HETATM 23 N N6 ADP . . . WA 28 317.035 209.872 287.795 1 35.27 ? N6 ADP 601 D1 1 HETATM 24 N N1 ADP . . . WA 28 317.287 211.872 286.671 1 35.27 ? N1 ADP 601 D1 1 HETATM 25 C C2 ADP . . . WA 28 318.07 212.886 286.291 1 35.27 ? C2 ADP 601 D1 1 HETATM 26 N N3 ADP . . . WA 28 319.362 213.09 286.553 1 35.27 ? N3 ADP 601 D1 1 HETATM 27 C C4 ADP . . . WA 28 319.862 212.104 287.304 1 35.27 ? C4 ADP 601 D1 1 HETATM 28 H "H5'1" ADP . . . WA 28 323.773 213.263 291.615 1 35.27 ? "H5'1" ADP 601 D1 1 HETATM 29 H "H5'2" ADP . . . WA 28 322.728 212.016 290.964 1 35.27 ? "H5'2" ADP 601 D1 1 HETATM 30 H H4' ADP . . . WA 28 324.431 213.909 289.249 1 35.27 ? H4' ADP 601 D1 1 HETATM 31 H H3' ADP . . . WA 28 321.474 213.98 289.993 1 35.27 ? H3' ADP 601 D1 1 HETATM 32 H HO3' ADP . . . WA 28 321.949 216.256 289.533 1 35.27 ? HO3' ADP 601 D1 1 HETATM 33 H H2' ADP . . . WA 28 320.943 214.634 287.761 1 35.27 ? H2' ADP 601 D1 1 HETATM 34 H HO2' ADP . . . WA 28 322.643 216.136 287.508 1 35.27 ? HO2' ADP 601 D1 1 HETATM 35 H H1' ADP . . . WA 28 322.575 212.776 286.509 1 35.27 ? H1' ADP 601 D1 1 HETATM 36 H H8 ADP . . . WA 28 322.065 210.456 288.992 1 35.27 ? H8 ADP 601 D1 1 HETATM 37 H HN61 ADP . . . WA 28 317.373 209.135 288.406 1 35.27 ? HN61 ADP 601 D1 1 HETATM 38 H HN62 ADP . . . WA 28 316.078 209.82 287.464 1 35.27 ? HN62 ADP 601 D1 1 HETATM 39 H H2 ADP . . . WA 28 317.579 213.647 285.687 1 35.27 ? H2 ADP 601 D1 1 # _model_server_stats.io_time_ms 94 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 182 _model_server_stats.query_time_ms 353 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 39 #