data_8DBS # _model_server_result.job_id 2nXgRWxbJcLC3Lr7xbamIQ _model_server_result.datetime_utc '2024-12-22 02:28:21' _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 8dbs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"DA","auth_seq_id":502}' # _entry.id 8DBS # _exptl.entry_id 8DBS _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 11 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _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 8DBS _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DBS _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 22-meric _pdbx_struct_assembly.oligomeric_count 22 _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 _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 ? 11 W N N ? 11 Y N N ? 11 AA N N ? 11 DA 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 W O2G ATP . A ATP 600 1_555 X MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? metalc ? metalc2 W O2B ATP . A ATP 600 1_555 X MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? metalc ? metalc3 B OG1 THR 176 B THR 176 1_555 Z MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.965 ? metalc ? metalc4 Y O2G ATP . B ATP 600 1_555 Z MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.918 ? metalc ? metalc5 Y O2B ATP . B ATP 600 1_555 Z MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? metalc ? metalc6 C OG1 THR 176 C THR 176 1_555 BA MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc7 AA O2G ATP . C ATP 600 1_555 BA MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc8 AA O2B ATP . C ATP 600 1_555 BA MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc9 D OG1 THR 157 D THR 156 1_555 CA MG MG . D MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? metalc ? metalc10 CA MG MG . D MG 501 1_555 DA O1G ATP . D ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.93 ? metalc ? metalc11 CA MG MG . D MG 501 1_555 DA O1B ATP . D ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? metalc ? metalc12 E OG1 THR 157 E THR 156 1_555 FA MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? metalc ? metalc13 EA O1B ADP . E ADP 501 1_555 FA MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc14 EA O1A ADP . E ADP 501 1_555 FA MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.98 ? metalc ? metalc15 EA O2A ADP . E ADP 501 1_555 FA MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.884 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 114 n n PG O2G ATP sing 115 n n PG O3G ATP sing 116 n n PG O3B ATP sing 117 n n O2G HOG2 ATP sing 118 n n O3G HOG3 ATP sing 119 n n PB O1B ATP doub 120 n n PB O2B ATP sing 121 n n PB O3B ATP sing 122 n n PB O3A ATP sing 123 n n O2B HOB2 ATP sing 124 n n PA O1A ATP doub 125 n n PA O2A ATP sing 126 n n PA O3A ATP sing 127 n n PA O5' ATP sing 128 n n O2A HOA2 ATP sing 129 n n O5' C5' ATP sing 130 n n C5' C4' ATP sing 131 n n C5' "H5'1" ATP sing 132 n n C5' "H5'2" ATP sing 133 n n C4' O4' ATP sing 134 n n C4' C3' ATP sing 135 n n C4' H4' ATP sing 136 n n O4' C1' ATP sing 137 n n C3' O3' ATP sing 138 n n C3' C2' ATP sing 139 n n C3' H3' ATP sing 140 n n O3' HO3' ATP sing 141 n n C2' O2' ATP sing 142 n n C2' C1' ATP sing 143 n n C2' H2' ATP sing 144 n n O2' HO2' ATP sing 145 n n C1' N9 ATP sing 146 n n C1' H1' ATP sing 147 n n N9 C8 ATP sing 148 n y N9 C4 ATP sing 149 n y C8 N7 ATP doub 150 n y C8 H8 ATP sing 151 n n N7 C5 ATP sing 152 n y C5 C6 ATP sing 153 n y C5 C4 ATP doub 154 n y C6 N6 ATP sing 155 n n C6 N1 ATP doub 156 n y N6 HN61 ATP sing 157 n n N6 HN62 ATP sing 158 n n N1 C2 ATP sing 159 n y C2 N3 ATP doub 160 n y C2 H2 ATP sing 161 n n N3 C4 ATP sing 162 n y # _atom_sites.entry_id 8DBS _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 W 11 ATP A 1 600 600 ATP ATP . X 12 MG A 1 601 601 MG MG . Y 11 ATP B 1 600 600 ATP ATP . Z 12 MG B 1 601 601 MG MG . AA 11 ATP C 1 600 600 ATP ATP . BA 12 MG C 1 601 601 MG MG . CA 12 MG D 1 501 501 MG MG . DA 11 ATP D 1 502 601 ATP ATP . EA 13 ADP E 1 501 500 ADP ADP . FA 12 MG E 1 502 502 MG MG . GA 13 ADP F 1 500 500 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 PG ATP . . . DA 11 139.514 153.278 187.529 1 52.72 ? PG ATP 502 D 1 HETATM 2 O O1G ATP . . . DA 11 138.09 153.166 187.147 1 52.72 ? O1G ATP 502 D 1 HETATM 3 O O2G ATP . . . DA 11 140.452 152.678 186.503 1 52.72 ? O2G ATP 502 D 1 HETATM 4 O O3G ATP . . . DA 11 139.822 152.713 188.919 1 52.72 ? O3G ATP 502 D 1 HETATM 5 P PB ATP . . . DA 11 139.539 156.185 186.958 1 52.72 ? PB ATP 502 D 1 HETATM 6 O O1B ATP . . . DA 11 138.198 156.129 186.365 1 52.72 ? O1B ATP 502 D 1 HETATM 7 O O2B ATP . . . DA 11 140.657 156.568 185.998 1 52.72 ? O2B ATP 502 D 1 HETATM 8 O O3B ATP . . . DA 11 139.933 154.806 187.611 1 52.72 ? O3B ATP 502 D 1 HETATM 9 P PA ATP . . . DA 11 138.605 158.121 188.946 1 52.72 ? PA ATP 502 D 1 HETATM 10 O O1A ATP . . . DA 11 137.732 157.368 189.864 1 52.72 ? O1A ATP 502 D 1 HETATM 11 O O2A ATP . . . DA 11 137.882 158.935 187.887 1 52.72 ? O2A ATP 502 D 1 HETATM 12 O O3A ATP . . . DA 11 139.608 157.184 188.189 1 52.72 ? O3A ATP 502 D 1 HETATM 13 O O5' ATP . . . DA 11 139.571 159.067 189.751 1 52.72 ? O5' ATP 502 D 1 HETATM 14 C C5' ATP . . . DA 11 140.499 158.537 190.718 1 52.72 ? C5' ATP 502 D 1 HETATM 15 C C4' ATP . . . DA 11 141.065 159.691 191.501 1 52.72 ? C4' ATP 502 D 1 HETATM 16 O O4' ATP . . . DA 11 141.24 160.814 190.623 1 52.72 ? O4' ATP 502 D 1 HETATM 17 C C3' ATP . . . DA 11 140.165 160.213 192.614 1 52.72 ? C3' ATP 502 D 1 HETATM 18 O O3' ATP . . . DA 11 140.471 159.564 193.839 1 52.72 ? O3' ATP 502 D 1 HETATM 19 C C2' ATP . . . DA 11 140.496 161.712 192.679 1 52.72 ? C2' ATP 502 D 1 HETATM 20 O O2' ATP . . . DA 11 141.223 162.033 193.859 1 52.72 ? O2' ATP 502 D 1 HETATM 21 C C1' ATP . . . DA 11 141.368 161.954 191.439 1 52.72 ? C1' ATP 502 D 1 HETATM 22 N N9 ATP . . . DA 11 140.975 163.119 190.66 1 52.72 ? N9 ATP 502 D 1 HETATM 23 C C8 ATP . . . DA 11 140.516 163.14 189.369 1 52.72 ? C8 ATP 502 D 1 HETATM 24 N N7 ATP . . . DA 11 140.236 164.338 188.922 1 52.72 ? N7 ATP 502 D 1 HETATM 25 C C5 ATP . . . DA 11 140.525 165.164 189.996 1 52.72 ? C5 ATP 502 D 1 HETATM 26 C C6 ATP . . . DA 11 140.44 166.557 190.171 1 52.72 ? C6 ATP 502 D 1 HETATM 27 N N6 ATP . . . DA 11 140.022 167.4 189.223 1 52.72 ? N6 ATP 502 D 1 HETATM 28 N N1 ATP . . . DA 11 140.807 167.065 191.366 1 52.72 ? N1 ATP 502 D 1 HETATM 29 C C2 ATP . . . DA 11 141.228 166.228 192.316 1 52.72 ? C2 ATP 502 D 1 HETATM 30 N N3 ATP . . . DA 11 141.349 164.9 192.268 1 52.72 ? N3 ATP 502 D 1 HETATM 31 C C4 ATP . . . DA 11 140.98 164.427 191.075 1 52.72 ? C4 ATP 502 D 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 40 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #