data_8RV2 # _model_server_result.job_id L-e00pRzMIR46-ZGliL91g _model_server_result.datetime_utc '2024-11-22 21:40:03' _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 8rv2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":401}' # _entry.id 8RV2 # _exptl.entry_id 8RV2 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 6 _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 8RV2 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8RV2 _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 hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _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 6 _struct_asym.id N _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 C GLU 72 A GLU 72 1_555 A N HIC 73 A HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 A C HIC 73 A HIC 73 1_555 A N GLY 74 A GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale3 B C GLU 72 B GLU 72 1_555 B N HIC 73 B HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale4 B C HIC 73 B HIC 73 1_555 B N GLY 74 B GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale5 C C GLU 72 C GLU 72 1_555 C N HIC 73 C HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 C C HIC 73 C HIC 73 1_555 C N GLY 74 C GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale7 D C GLU 72 D GLU 72 1_555 D N HIC 73 D HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale8 D C HIC 73 D HIC 73 1_555 D N GLY 74 D GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? metalc ? metalc1 G O1B ADP . A ADP 401 1_555 H MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? metalc ? metalc2 J MG MG . B MG 402 1_555 K O3 PO4 . B PO4 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? metalc ? metalc3 L O1B ADP . C ADP 401 1_555 M MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? metalc ? metalc4 N O1G ATP . D ATP 401 1_555 O MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? # _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 8RV2 _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 G 3 ADP A 1 401 376 ADP ADP . H 4 MG A 1 402 377 MG MG . I 3 ADP B 1 401 376 ADP ADP . J 4 MG B 1 402 377 MG MG . K 5 PO4 B 1 403 378 PO4 PO4 . L 3 ADP C 1 401 376 ADP ADP . M 4 MG C 1 402 377 MG MG . N 6 ATP D 1 401 376 ATP ATP . O 4 MG D 1 402 377 MG MG . # 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 . . . N 6 151.275 150.601 134.157 1 37.63 ? PG ATP 401 D 1 HETATM 2 O O1G ATP . . . N 6 150.682 149.693 133.133 1 29.18 ? O1G ATP 401 D 1 HETATM 3 O O2G ATP . . . N 6 152.345 149.93 135.021 1 23.15 ? O2G ATP 401 D 1 HETATM 4 O O3G ATP . . . N 6 151.844 151.9 133.577 1 22.39 ? O3G ATP 401 D 1 HETATM 5 P PB ATP . . . N 6 149.26 150.491 136.366 1 12.27 ? PB ATP 401 D 1 HETATM 6 O O1B ATP . . . N 6 148.449 149.347 135.909 1 9.77 ? O1B ATP 401 D 1 HETATM 7 O O2B ATP . . . N 6 150.185 150.217 137.547 1 13.68 ? O2B ATP 401 D 1 HETATM 8 O O3B ATP . . . N 6 150.159 151.08 135.198 1 16.4 ? O3B ATP 401 D 1 HETATM 9 P PA ATP . . . N 6 146.843 152.179 136.529 1 8.41 ? PA ATP 401 D 1 HETATM 10 O O1A ATP . . . N 6 145.931 151.034 136.725 1 8.48 ? O1A ATP 401 D 1 HETATM 11 O O2A ATP . . . N 6 146.762 152.832 135.153 1 10.69 ? O2A ATP 401 D 1 HETATM 12 O O3A ATP . . . N 6 148.351 151.741 136.749 1 10.09 ? O3A ATP 401 D 1 HETATM 13 O O5' ATP . . . N 6 146.598 153.299 137.615 1 14.92 ? O5' ATP 401 D 1 HETATM 14 C C5' ATP . . . N 6 147.589 153.605 138.618 1 12.02 ? C5' ATP 401 D 1 HETATM 15 C C4' ATP . . . N 6 147.543 155.087 138.902 1 10.11 ? C4' ATP 401 D 1 HETATM 16 O O4' ATP . . . N 6 146.292 155.63 138.448 1 10 ? O4' ATP 401 D 1 HETATM 17 C C3' ATP . . . N 6 147.599 155.477 140.373 1 10.49 ? C3' ATP 401 D 1 HETATM 18 O O3' ATP . . . N 6 148.946 155.575 140.82 1 20.26 ? O3' ATP 401 D 1 HETATM 19 C C2' ATP . . . N 6 146.9 156.846 140.4 1 8.51 ? C2' ATP 401 D 1 HETATM 20 O O2' ATP . . . N 6 147.835 157.917 140.459 1 12.59 ? O2' ATP 401 D 1 HETATM 21 C C1' ATP . . . N 6 146.125 156.885 139.074 1 7.32 ? C1' ATP 401 D 1 HETATM 22 N N9 ATP . . . N 6 144.697 157.145 139.223 1 6.59 ? N9 ATP 401 D 1 HETATM 23 C C8 ATP . . . N 6 143.7 156.223 139.413 1 6.44 ? C8 ATP 401 D 1 HETATM 24 N N7 ATP . . . N 6 142.502 156.744 139.513 1 4.62 ? N7 ATP 401 D 1 HETATM 25 C C5 ATP . . . N 6 142.724 158.106 139.381 1 4.54 ? C5 ATP 401 D 1 HETATM 26 C C6 ATP . . . N 6 141.858 159.216 139.396 1 5.34 ? C6 ATP 401 D 1 HETATM 27 N N6 ATP . . . N 6 140.534 159.127 139.559 1 6.48 ? N6 ATP 401 D 1 HETATM 28 N N1 ATP . . . N 6 142.405 160.442 139.235 1 5.05 ? N1 ATP 401 D 1 HETATM 29 C C2 ATP . . . N 6 143.726 160.539 139.071 1 5.28 ? C2 ATP 401 D 1 HETATM 30 N N3 ATP . . . N 6 144.638 159.567 139.039 1 5.47 ? N3 ATP 401 D 1 HETATM 31 C C4 ATP . . . N 6 144.072 158.367 139.2 1 5.07 ? C4 ATP 401 D 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 31 #