data_8DBU # _model_server_result.job_id Xw1AdBULetNcCb8YDqMVqw _model_server_result.datetime_utc '2024-12-22 01:37:23' _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 8dbu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Y","auth_seq_id":600}' # _entry.id 8DBU # _exptl.entry_id 8DBU _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 9 _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 8DBU _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DBU _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 ? 9 W N N ? 9 Y N N ? 9 AA N N ? 9 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 A OG1 THR 176 A THR 176 1_555 X MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? metalc ? metalc2 W O2G ATP . A ATP 600 1_555 X MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? metalc ? metalc3 W O2B ATP . A ATP 600 1_555 X MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? metalc ? metalc4 B OG1 THR 176 B THR 176 1_555 Z MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? metalc ? metalc5 Y O2G ATP . B ATP 600 1_555 Z MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc6 Y O2B ATP . B ATP 600 1_555 Z MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? metalc ? metalc7 C OG1 THR 176 C THR 176 1_555 BA MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc8 AA O2G ATP . C ATP 600 1_555 BA MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc9 AA O2B ATP . C ATP 600 1_555 BA MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.485 ? metalc ? metalc10 D OG1 THR 157 D THR 156 1_555 CA MG MG . D MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc11 CA MG MG . D MG 501 1_555 DA O1G ATP . D ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.9 ? metalc ? metalc12 CA MG MG . D MG 501 1_555 DA O3B ATP . D ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.719 ? metalc ? metalc13 CA MG MG . D MG 501 1_555 DA O1B ATP . D ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? metalc ? metalc14 E OG1 THR 157 E THR 156 1_555 FA MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.723 ? metalc ? metalc15 EA O1B ADP . E ADP 501 1_555 FA MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc16 EA O2B ADP . E ADP 501 1_555 FA MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.802 ? # _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 8DBU _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 9 ATP A 1 600 600 ATP ATP . X 10 MG A 1 601 601 MG MG . Y 9 ATP B 1 600 600 ATP ATP . Z 10 MG B 1 601 601 MG MG . AA 9 ATP C 1 600 600 ATP ATP . BA 10 MG C 1 601 601 MG MG . CA 10 MG D 1 501 501 MG MG . DA 9 ATP D 1 502 601 ATP ATP . EA 11 ADP E 1 501 500 ADP ADP . FA 10 MG E 1 502 502 MG MG . GA 11 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 . . . Y 9 146.151 158.202 163.232 1 51.53 ? PG ATP 600 B 1 HETATM 2 O O1G ATP . . . Y 9 147.071 157.282 163.926 1 51.53 ? O1G ATP 600 B 1 HETATM 3 O O2G ATP . . . Y 9 145.514 157.647 161.913 1 51.53 ? O2G ATP 600 B 1 HETATM 4 O O3G ATP . . . Y 9 145.01 158.705 164.142 1 51.53 ? O3G ATP 600 B 1 HETATM 5 P PB ATP . . . Y 9 148.045 159.988 161.678 1 51.53 ? PB ATP 600 B 1 HETATM 6 O O1B ATP . . . Y 9 149.426 159.622 162.067 1 51.53 ? O1B ATP 600 B 1 HETATM 7 O O2B ATP . . . Y 9 147.672 159.486 160.266 1 51.53 ? O2B ATP 600 B 1 HETATM 8 O O3B ATP . . . Y 9 146.927 159.517 162.776 1 51.53 ? O3B ATP 600 B 1 HETATM 9 P PA ATP . . . Y 9 146.96 162.655 160.902 1 51.53 ? PA ATP 600 B 1 HETATM 10 O O1A ATP . . . Y 9 147.373 162.868 159.499 1 51.53 ? O1A ATP 600 B 1 HETATM 11 O O2A ATP . . . Y 9 145.468 162.305 161.073 1 51.53 ? O2A ATP 600 B 1 HETATM 12 O O3A ATP . . . Y 9 147.87 161.559 161.688 1 51.53 ? O3A ATP 600 B 1 HETATM 13 O O5' ATP . . . Y 9 147.295 164.016 161.629 1 51.53 ? O5' ATP 600 B 1 HETATM 14 C C5' ATP . . . Y 9 147.18 164.152 163.062 1 51.53 ? C5' ATP 600 B 1 HETATM 15 C C4' ATP . . . Y 9 147.064 165.624 163.376 1 51.53 ? C4' ATP 600 B 1 HETATM 16 O O4' ATP . . . Y 9 148.223 166.332 162.886 1 51.53 ? O4' ATP 600 B 1 HETATM 17 C C3' ATP . . . Y 9 145.839 166.334 162.788 1 51.53 ? C3' ATP 600 B 1 HETATM 18 O O3' ATP . . . Y 9 145.217 167.17 163.756 1 51.53 ? O3' ATP 600 B 1 HETATM 19 C C2' ATP . . . Y 9 146.416 167.113 161.609 1 51.53 ? C2' ATP 600 B 1 HETATM 20 O O2' ATP . . . Y 9 145.69 168.311 161.359 1 51.53 ? O2' ATP 600 B 1 HETATM 21 C C1' ATP . . . Y 9 147.813 167.447 162.121 1 51.53 ? C1' ATP 600 B 1 HETATM 22 N N9 ATP . . . Y 9 148.796 167.694 161.072 1 51.53 ? N9 ATP 600 B 1 HETATM 23 C C8 ATP . . . Y 9 149.213 166.836 160.08 1 51.53 ? C8 ATP 600 B 1 HETATM 24 N N7 ATP . . . Y 9 150.103 167.337 159.271 1 51.53 ? N7 ATP 600 B 1 HETATM 25 C C5 ATP . . . Y 9 150.296 168.628 159.736 1 51.53 ? C5 ATP 600 B 1 HETATM 26 C C6 ATP . . . Y 9 151.108 169.684 159.323 1 51.53 ? C6 ATP 600 B 1 HETATM 27 N N6 ATP . . . Y 9 151.95 169.615 158.264 1 51.53 ? N6 ATP 600 B 1 HETATM 28 N N1 ATP . . . Y 9 151.066 170.845 160.003 1 51.53 ? N1 ATP 600 B 1 HETATM 29 C C2 ATP . . . Y 9 150.239 170.931 161.054 1 51.53 ? C2 ATP 600 B 1 HETATM 30 N N3 ATP . . . Y 9 149.418 169.999 161.545 1 51.53 ? N3 ATP 600 B 1 HETATM 31 C C4 ATP . . . Y 9 149.489 168.867 160.841 1 51.53 ? C4 ATP 600 B 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 66 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 31 #