data_6FKF # _model_server_result.job_id nujYQgI9TgLN3EHydNq5Fg _model_server_result.datetime_utc '2025-03-06 08:39:50' _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 6fkf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"EA","auth_seq_id":600}' # _entry.id 6FKF # _exptl.entry_id 6FKF _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 12 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 2 _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 6FKF _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6FKF _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 26-meric _pdbx_struct_assembly.oligomeric_count 26 _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 _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 ? 12 EA N N ? 12 IA 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 G SG CYS 240 g CYS 240 1_555 G SG CYS 246 g CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.697 ? metalc ? metalc1 A OG1 THR 177 A THR 177 1_555 BA MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc2 AA O2G ATP . A ATP 600 1_555 BA MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.728 ? metalc ? metalc3 AA O2B ATP . A ATP 600 1_555 BA MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.261 ? metalc ? metalc4 BA MG MG . A MG 601 1_555 KA O HOH . A HOH 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc5 BA MG MG . A MG 601 1_555 KA O HOH . A HOH 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? metalc ? metalc6 C OG1 THR 177 C THR 177 1_555 DA MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc7 CA O2G ATP . C ATP 600 1_555 DA MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc8 CA O2B ATP . C ATP 600 1_555 DA MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc9 DA MG MG . C MG 601 1_555 MA O HOH . C HOH 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? metalc ? metalc10 D OG1 THR 179 D THR 179 1_555 FA MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc11 EA O2B ADP . D ADP 600 1_555 FA MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? metalc ? metalc12 EA O3B ADP . D ADP 600 1_555 FA MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc13 FA MG MG . D MG 601 1_555 NA O HOH . D HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc14 FA MG MG . D MG 601 1_555 NA O HOH . D HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc15 E OG1 THR 177 E THR 177 1_555 HA MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc16 GA O2G ATP . E ATP 600 1_555 HA MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? metalc ? metalc17 GA O2B ATP . E ATP 600 1_555 HA MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? metalc ? metalc18 HA MG MG . E MG 601 1_555 OA O HOH . E HOH 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc19 F OG1 THR 179 F THR 179 1_555 JA MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.626 ? metalc ? metalc20 IA O2B ADP . F ADP 600 1_555 JA MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc21 JA MG MG . F MG 601 1_555 PA O HOH . F HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc22 JA MG MG . F MG 601 1_555 PA O HOH . F HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? # _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 ? # 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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 6FKF _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 AA 10 ATP A 1 600 600 ATP ATP . BA 11 MG A 1 601 601 MG MG . CA 10 ATP C 1 600 600 ATP ATP . DA 11 MG C 1 601 601 MG MG . EA 12 ADP D 1 600 600 ADP ADP . FA 11 MG D 1 601 601 MG MG . GA 10 ATP E 1 600 600 ATP ATP . HA 11 MG E 1 601 601 MG MG . IA 12 ADP F 1 600 600 ADP ADP . JA 11 MG F 1 601 601 MG MG . KA 13 HOH A 1 701 2 HOH HOH . KA 13 HOH A 2 702 1 HOH HOH . LA 13 HOH B 1 501 805 HOH HOH . MA 13 HOH C 1 701 800 HOH HOH . MA 13 HOH C 2 702 804 HOH HOH . MA 13 HOH C 3 703 802 HOH HOH . MA 13 HOH C 4 704 801 HOH HOH . MA 13 HOH C 5 705 803 HOH HOH . MA 13 HOH C 6 706 806 HOH HOH . NA 13 HOH D 1 801 801 HOH HOH . NA 13 HOH D 2 802 802 HOH HOH . NA 13 HOH D 3 803 807 HOH HOH . NA 13 HOH D 4 804 804 HOH HOH . NA 13 HOH D 5 805 806 HOH HOH . OA 13 HOH E 1 701 803 HOH HOH . OA 13 HOH E 2 702 801 HOH HOH . OA 13 HOH E 3 703 802 HOH HOH . OA 13 HOH E 4 704 814 HOH HOH . OA 13 HOH E 5 705 813 HOH HOH . OA 13 HOH E 6 706 811 HOH HOH . OA 13 HOH E 7 707 812 HOH HOH . PA 13 HOH F 1 801 801 HOH HOH . PA 13 HOH F 2 802 802 HOH HOH . PA 13 HOH F 3 803 806 HOH HOH . PA 13 HOH F 4 804 807 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 P PB ADP . . . EA 12 182.048 158.903 237.366 1 7.75 ? PB ADP 600 D 1 HETATM 2 O O1B ADP . . . EA 12 182.703 160.175 236.926 1 7.75 ? O1B ADP 600 D 1 HETATM 3 O O2B ADP . . . EA 12 180.777 159.094 238.135 1 7.75 ? O2B ADP 600 D 1 HETATM 4 O O3B ADP . . . EA 12 182.971 157.896 237.969 1 7.75 ? O3B ADP 600 D 1 HETATM 5 P PA ADP . . . EA 12 181.013 156.744 235.888 1 7.75 ? PA ADP 600 D 1 HETATM 6 O O1A ADP . . . EA 12 182.108 155.73 235.995 1 7.75 ? O1A ADP 600 D 1 HETATM 7 O O2A ADP . . . EA 12 179.8 156.655 236.761 1 7.75 ? O2A ADP 600 D 1 HETATM 8 O O3A ADP . . . EA 12 181.603 158.231 235.989 1 7.75 ? O3A ADP 600 D 1 HETATM 9 O O5' ADP . . . EA 12 180.54 156.766 234.367 1 7.75 ? O5' ADP 600 D 1 HETATM 10 C C5' ADP . . . EA 12 179.217 157.143 234.068 1 7.75 ? C5' ADP 600 D 1 HETATM 11 C C4' ADP . . . EA 12 178.808 156.514 232.762 1 7.75 ? C4' ADP 600 D 1 HETATM 12 O O4' ADP . . . EA 12 179.773 156.701 231.742 1 7.75 ? O4' ADP 600 D 1 HETATM 13 C C3' ADP . . . EA 12 178.709 155.024 232.922 1 7.75 ? C3' ADP 600 D 1 HETATM 14 O O3' ADP . . . EA 12 177.445 154.669 233.469 1 7.75 ? O3' ADP 600 D 1 HETATM 15 C C2' ADP . . . EA 12 178.832 154.554 231.506 1 7.75 ? C2' ADP 600 D 1 HETATM 16 O O2' ADP . . . EA 12 177.535 154.551 230.922 1 7.75 ? O2' ADP 600 D 1 HETATM 17 C C1' ADP . . . EA 12 179.664 155.614 230.826 1 7.75 ? C1' ADP 600 D 1 HETATM 18 N N9 ADP . . . EA 12 180.976 154.981 230.597 1 7.75 ? N9 ADP 600 D 1 HETATM 19 C C8 ADP . . . EA 12 182.073 155.124 231.353 1 7.75 ? C8 ADP 600 D 1 HETATM 20 N N7 ADP . . . EA 12 183.092 154.394 230.852 1 7.75 ? N7 ADP 600 D 1 HETATM 21 C C5 ADP . . . EA 12 182.637 153.757 229.764 1 7.75 ? C5 ADP 600 D 1 HETATM 22 C C6 ADP . . . EA 12 183.19 152.819 228.779 1 7.75 ? C6 ADP 600 D 1 HETATM 23 N N6 ADP . . . EA 12 184.476 152.426 228.853 1 7.75 ? N6 ADP 600 D 1 HETATM 24 N N1 ADP . . . EA 12 182.379 152.407 227.794 1 7.75 ? N1 ADP 600 D 1 HETATM 25 C C2 ADP . . . EA 12 181.103 152.803 227.703 1 7.75 ? C2 ADP 600 D 1 HETATM 26 N N3 ADP . . . EA 12 180.533 153.649 228.569 1 7.75 ? N3 ADP 600 D 1 HETATM 27 C C4 ADP . . . EA 12 181.239 154.145 229.603 1 7.75 ? C4 ADP 600 D 1 # _model_server_stats.io_time_ms 55 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 58 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #