data_9E8J # _model_server_result.job_id -rFFRzHg-iHK-moNWv4CfA _model_server_result.datetime_utc '2024-12-20 19:39:52' _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 9e8j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"EA","auth_seq_id":501}' # _entry.id 9E8J # _exptl.entry_id 9E8J _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 29 _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 ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 28-meric _pdbx_struct_assembly.oligomeric_count 28 _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 _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 ? 29 CA N N ? 29 EA N N ? 29 GA N N ? 29 LA 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 115 G CYS 115 1_555 G SG CYS 154 G CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 H SG CYS 137 H CYS 137 1_555 H SG CYS 213 H CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf3 M SG CYS 42 M CYS 41 1_555 M SG CYS 187 M CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 N SG CYS 633 U CYS 633 1_555 N SG CYS 659 U CYS 659 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc1 A OG1 THR 223 A THR 223 1_555 DA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.729 ? metalc ? metalc2 A OD2 ASP 275 A ASP 275 1_555 DA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.889 ? metalc ? metalc3 CA O1B ATP . A ATP 501 1_555 DA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? metalc ? metalc4 B OG1 THR 233 B THR 233 1_555 FA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc5 B OD2 ASP 285 B ASP 285 1_555 FA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.683 ? metalc ? metalc6 EA O2G ATP . B ATP 501 1_555 FA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc7 EA O2B ATP . B ATP 501 1_555 FA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? metalc ? metalc8 C OD1 ASP 249 C ASP 249 1_555 HA MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc9 C OD2 ASP 249 C ASP 249 1_555 HA MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.818 ? metalc ? metalc10 GA O1G ATP . C ATP 501 1_555 HA MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.852 ? metalc ? metalc11 GA O2G ATP . C ATP 501 1_555 HA MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc12 D OG1 THR 213 D THR 213 1_555 JA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.77 ? metalc ? metalc13 D OD2 ASP 265 D ASP 265 1_555 JA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.944 ? metalc ? metalc14 IA O2B ADP . D ADP 501 1_555 JA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.832 ? metalc ? metalc15 IA O3A ADP . D ADP 501 1_555 JA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.866 ? metalc ? metalc16 F OG1 THR 234 F THR 234 1_555 MA MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? metalc ? metalc17 LA O3G ATP . F ATP 501 1_555 MA MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.935 ? metalc ? metalc18 V NE2 HIS 113 c HIS 113 1_555 NA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc19 V NE2 HIS 115 c HIS 115 1_555 NA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc20 V OD1 ASP 126 c ASP 126 1_555 NA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.696 ? metalc ? metalc21 V OD2 ASP 126 c ASP 126 1_555 NA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.778 ? metalc ? metalc22 AA ND1 HIS 289 u HIS 289 1_555 NA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.537 ? metalc ? metalc23 AA NE2 HIS 289 u HIS 289 1_555 NA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? # _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 9E8J _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 CA 29 ATP A 1 501 501 ATP ATP . DA 30 MG A 1 502 502 MG MG . EA 29 ATP B 1 501 501 ATP ATP . FA 30 MG B 1 502 502 MG MG . GA 29 ATP C 1 501 501 ATP ATP . HA 30 MG C 1 502 502 MG MG . IA 31 ADP D 1 501 501 ADP ADP . JA 30 MG D 1 502 502 MG MG . KA 31 ADP E 1 501 501 ADP ADP . LA 29 ATP F 1 501 501 ATP ATP . MA 30 MG F 1 502 502 MG MG . NA 32 ZN u 1 301 311 ZN ZN . # 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 . . . EA 29 193.628 174.385 211.86 1 40.09 ? PG ATP 501 B 1 HETATM 2 O O1G ATP . . . EA 29 194.089 173.086 211.303 1 40.09 ? O1G ATP 501 B 1 HETATM 3 O O2G ATP . . . EA 29 194.459 175.575 211.388 1 40.09 ? O2G ATP 501 B 1 HETATM 4 O O3G ATP . . . EA 29 192.148 174.675 211.616 1 40.09 ? O3G ATP 501 B 1 HETATM 5 P PB ATP . . . EA 29 194.788 174.893 214.535 1 40.09 ? PB ATP 501 B 1 HETATM 6 O O1B ATP . . . EA 29 195.824 173.889 214.823 1 40.09 ? O1B ATP 501 B 1 HETATM 7 O O2B ATP . . . EA 29 195.275 176.258 214.077 1 40.09 ? O2B ATP 501 B 1 HETATM 8 O O3B ATP . . . EA 29 193.783 174.395 213.439 1 40.09 ? O3B ATP 501 B 1 HETATM 9 P PA ATP . . . EA 29 193.88 176.081 217.056 1 40.09 ? PA ATP 501 B 1 HETATM 10 O O1A ATP . . . EA 29 194.06 177.487 216.649 1 40.09 ? O1A ATP 501 B 1 HETATM 11 O O2A ATP . . . EA 29 194.946 175.53 217.999 1 40.09 ? O2A ATP 501 B 1 HETATM 12 O O3A ATP . . . EA 29 193.85 175.149 215.792 1 40.09 ? O3A ATP 501 B 1 HETATM 13 O O5' ATP . . . EA 29 192.465 175.904 217.729 1 40.09 ? O5' ATP 501 B 1 HETATM 14 C C5' ATP . . . EA 29 191.751 177.035 218.268 1 40.09 ? C5' ATP 501 B 1 HETATM 15 C C4' ATP . . . EA 29 191.522 176.835 219.743 1 40.09 ? C4' ATP 501 B 1 HETATM 16 O O4' ATP . . . EA 29 191.77 175.463 220.083 1 40.09 ? O4' ATP 501 B 1 HETATM 17 C C3' ATP . . . EA 29 192.44 177.642 220.652 1 40.09 ? C3' ATP 501 B 1 HETATM 18 O O3' ATP . . . EA 29 191.803 178.85 221.044 1 40.09 ? O3' ATP 501 B 1 HETATM 19 C C2' ATP . . . EA 29 192.664 176.726 221.865 1 40.09 ? C2' ATP 501 B 1 HETATM 20 O O2' ATP . . . EA 29 192.05 177.26 223.033 1 40.09 ? O2' ATP 501 B 1 HETATM 21 C C1' ATP . . . EA 29 191.994 175.406 221.469 1 40.09 ? C1' ATP 501 B 1 HETATM 22 N N9 ATP . . . EA 29 192.81 174.233 221.743 1 40.09 ? N9 ATP 501 B 1 HETATM 23 C C8 ATP . . . EA 29 193.178 173.263 220.848 1 40.09 ? C8 ATP 501 B 1 HETATM 24 N N7 ATP . . . EA 29 193.924 172.317 221.361 1 40.09 ? N7 ATP 501 B 1 HETATM 25 C C5 ATP . . . EA 29 194.065 172.696 222.687 1 40.09 ? C5 ATP 501 B 1 HETATM 26 C C6 ATP . . . EA 29 194.745 172.113 223.77 1 40.09 ? C6 ATP 501 B 1 HETATM 27 N N6 ATP . . . EA 29 195.441 170.976 223.686 1 40.09 ? N6 ATP 501 B 1 HETATM 28 N N1 ATP . . . EA 29 194.684 172.743 224.96 1 40.09 ? N1 ATP 501 B 1 HETATM 29 C C2 ATP . . . EA 29 193.989 173.879 225.051 1 40.09 ? C2 ATP 501 B 1 HETATM 30 N N3 ATP . . . EA 29 193.309 174.522 224.1 1 40.09 ? N3 ATP 501 B 1 HETATM 31 C C4 ATP . . . EA 29 193.383 173.874 222.936 1 40.09 ? C4 ATP 501 B 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 115 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #