data_9B5X # _model_server_result.job_id Wax5FDwgQo7BeygfYylyGQ _model_server_result.datetime_utc '2024-11-08 13:25:13' _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 9b5x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1103}' # _entry.id 9B5X # _exptl.entry_id 9B5X _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 9B5X _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 9B5X _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 5 _struct_asym.id F _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 A SG CYS 582 A CYS 593 1_555 G C03 A1AIV . D A1AIV 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.771 ? covale ? covale2 B SG CYS 85 C CYS 85 1_555 G C03 A1AIV . D A1AIV 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.759 ? covale ? covale3 C C GLY 79 D GLY 75 1_555 G N01 A1AIV . D A1AIV 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? metalc ? metalc1 A OD2 ASP 454 A ASP 465 1_555 E MG MG . A MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc2 A OE2 GLU 457 A GLU 468 1_555 E MG MG . A MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? metalc ? metalc3 A OD2 ASP 526 A ASP 537 1_555 D MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc4 D MG MG . A MG 1101 1_555 F O2A ATP . A ATP 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? metalc ? metalc5 D MG MG . A MG 1101 1_555 F O2B ATP . A ATP 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? metalc ? metalc6 D MG MG . A MG 1101 1_555 F O3G ATP . A ATP 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc7 E MG MG . A MG 1102 1_555 F O1B ATP . A ATP 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? # _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 83 n n PG O2G ATP sing 84 n n PG O3G ATP sing 85 n n PG O3B ATP sing 86 n n O2G HOG2 ATP sing 87 n n O3G HOG3 ATP sing 88 n n PB O1B ATP doub 89 n n PB O2B ATP sing 90 n n PB O3B ATP sing 91 n n PB O3A ATP sing 92 n n O2B HOB2 ATP sing 93 n n PA O1A ATP doub 94 n n PA O2A ATP sing 95 n n PA O3A ATP sing 96 n n PA O5' ATP sing 97 n n O2A HOA2 ATP sing 98 n n O5' C5' ATP sing 99 n n C5' C4' ATP sing 100 n n C5' "H5'1" ATP sing 101 n n C5' "H5'2" ATP sing 102 n n C4' O4' ATP sing 103 n n C4' C3' ATP sing 104 n n C4' H4' ATP sing 105 n n O4' C1' ATP sing 106 n n C3' O3' ATP sing 107 n n C3' C2' ATP sing 108 n n C3' H3' ATP sing 109 n n O3' HO3' ATP sing 110 n n C2' O2' ATP sing 111 n n C2' C1' ATP sing 112 n n C2' H2' ATP sing 113 n n O2' HO2' ATP sing 114 n n C1' N9 ATP sing 115 n n C1' H1' ATP sing 116 n n N9 C8 ATP sing 117 n y N9 C4 ATP sing 118 n y C8 N7 ATP doub 119 n y C8 H8 ATP sing 120 n n N7 C5 ATP sing 121 n y C5 C6 ATP sing 122 n y C5 C4 ATP doub 123 n y C6 N6 ATP sing 124 n n C6 N1 ATP doub 125 n y N6 HN61 ATP sing 126 n n N6 HN62 ATP sing 127 n n N1 C2 ATP sing 128 n y C2 N3 ATP doub 129 n y C2 H2 ATP sing 130 n n N3 C4 ATP sing 131 n y # _atom_sites.entry_id 9B5X _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 D 4 MG A 1 1101 1101 MG MG . E 4 MG A 1 1102 1102 MG MG . F 5 ATP A 1 1103 1103 ATP ATP . G 6 A1AIV D 1 101 76 A1AIV LIG . # 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 . . . F 5 216.123 207.934 208.945 1 230.45 ? PG ATP 1103 A 1 HETATM 2 O O1G ATP . . . F 5 216.693 208.163 207.588 1 230.45 ? O1G ATP 1103 A 1 HETATM 3 O O2G ATP . . . F 5 216.058 209.2 209.806 1 230.45 ? O2G ATP 1103 A 1 HETATM 4 O O3G ATP . . . F 5 214.749 207.261 208.925 1 230.45 ? O3G ATP 1103 A 1 HETATM 5 P PB ATP . . . F 5 217.533 205.426 209.737 1 230.45 ? PB ATP 1103 A 1 HETATM 6 O O1B ATP . . . F 5 219.004 205.329 209.746 1 230.45 ? O1B ATP 1103 A 1 HETATM 7 O O2B ATP . . . F 5 216.825 204.76 208.562 1 230.45 ? O2B ATP 1103 A 1 HETATM 8 O O3B ATP . . . F 5 217.044 206.931 209.776 1 230.45 ? O3B ATP 1103 A 1 HETATM 9 P PA ATP . . . F 5 215.434 204.538 211.617 1 230.45 ? PA ATP 1103 A 1 HETATM 10 O O1A ATP . . . F 5 215.101 205.404 212.766 1 230.45 ? O1A ATP 1103 A 1 HETATM 11 O O2A ATP . . . F 5 214.478 204.64 210.432 1 230.45 ? O2A ATP 1103 A 1 HETATM 12 O O3A ATP . . . F 5 216.892 204.84 211.07 1 230.45 ? O3A ATP 1103 A 1 HETATM 13 O O5' ATP . . . F 5 215.526 203.025 212.057 1 230.45 ? O5' ATP 1103 A 1 HETATM 14 C C5' ATP . . . F 5 215.644 201.966 211.083 1 230.45 ? C5' ATP 1103 A 1 HETATM 15 C C4' ATP . . . F 5 216.676 200.988 211.577 1 230.45 ? C4' ATP 1103 A 1 HETATM 16 O O4' ATP . . . F 5 216.431 199.735 210.899 1 230.45 ? O4' ATP 1103 A 1 HETATM 17 C C3' ATP . . . F 5 218.084 201.413 211.149 1 230.45 ? C3' ATP 1103 A 1 HETATM 18 O O3' ATP . . . F 5 218.943 200.962 212.188 1 230.45 ? O3' ATP 1103 A 1 HETATM 19 C C2' ATP . . . F 5 218.357 200.531 209.929 1 230.45 ? C2' ATP 1103 A 1 HETATM 20 O O2' ATP . . . F 5 219.736 200.194 209.981 1 230.45 ? O2' ATP 1103 A 1 HETATM 21 C C1' ATP . . . F 5 217.636 199.261 210.349 1 230.45 ? C1' ATP 1103 A 1 HETATM 22 N N9 ATP . . . F 5 217.282 198.435 209.201 1 230.45 ? N9 ATP 1103 A 1 HETATM 23 C C8 ATP . . . F 5 216.417 198.749 208.185 1 230.45 ? C8 ATP 1103 A 1 HETATM 24 N N7 ATP . . . F 5 216.29 197.809 207.281 1 230.45 ? N7 ATP 1103 A 1 HETATM 25 C C5 ATP . . . F 5 217.131 196.803 207.733 1 230.45 ? C5 ATP 1103 A 1 HETATM 26 C C6 ATP . . . F 5 217.449 195.529 207.224 1 230.45 ? C6 ATP 1103 A 1 HETATM 27 N N6 ATP . . . F 5 216.935 195.028 206.096 1 230.45 ? N6 ATP 1103 A 1 HETATM 28 N N1 ATP . . . F 5 218.325 194.775 207.922 1 230.45 ? N1 ATP 1103 A 1 HETATM 29 C C2 ATP . . . F 5 218.841 195.268 209.051 1 230.45 ? C2 ATP 1103 A 1 HETATM 30 N N3 ATP . . . F 5 218.616 196.45 209.627 1 230.45 ? N3 ATP 1103 A 1 HETATM 31 C C4 ATP . . . F 5 217.747 197.175 208.917 1 230.45 ? C4 ATP 1103 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 31 #