data_7NGF # _model_server_result.job_id 9sdLVI4aaCvveB3jeire5g _model_server_result.datetime_utc '2024-11-29 16:19:05' _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 7ngf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":1001}' # _entry.id 7NGF # _exptl.entry_id 7NGF _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 5 _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 7NGF _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7NGF _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 PISA _pdbx_struct_assembly.oligomeric_details heptameric _pdbx_struct_assembly.oligomeric_count 7 _pdbx_struct_assembly.details author_and_software_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 _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 ? 3 H N N ? 3 J N N ? 3 M N N ? 3 O N N ? 3 Q 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 408 A THR 530 1_555 I MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc2 H O1G ATP . A ATP 1001 1_555 I MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? metalc ? metalc3 H O2G ATP . A ATP 1001 1_555 I MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc4 H O1B ATP . A ATP 1001 1_555 I MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc5 B OG1 THR 408 B THR 530 1_555 K MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc6 J O1G ATP . B ATP 1001 1_555 K MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc7 J O2G ATP . B ATP 1001 1_555 K MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc8 J O1B ATP . B ATP 1001 1_555 K MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc9 D OG1 THR 408 D THR 530 1_555 N MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc10 M O2G ATP . D ATP 1001 1_555 N MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? metalc ? metalc11 M O3G ATP . D ATP 1001 1_555 N MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.762 ? metalc ? metalc12 M O1B ATP . D ATP 1001 1_555 N MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? metalc ? metalc13 E OG1 THR 408 E THR 530 1_555 P MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc14 O O2G ATP . E ATP 1001 1_555 P MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc15 O O1B ATP . E ATP 1001 1_555 P MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc16 O O1A ATP . E ATP 1001 1_555 P MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc17 F OG1 THR 408 F THR 530 1_555 R MG MG . F MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc18 Q O2G ATP . F ATP 1001 1_555 R MG MG . F MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc19 Q O1B ATP . F ATP 1001 1_555 R MG MG . F MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? # _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 7NGF _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 H 3 ATP A 1 1001 1001 ATP ATP . I 4 MG A 1 1002 1002 MG MG . J 3 ATP B 1 1001 1001 ATP ATP . K 4 MG B 1 1002 1002 MG MG . L 5 ADP C 1 1001 1001 ADP ADP . M 3 ATP D 1 1001 1001 ATP ATP . N 4 MG D 1 1002 1002 MG MG . O 3 ATP E 1 1001 1001 ATP ATP . P 4 MG E 1 1002 1002 MG MG . Q 3 ATP F 1 1001 1001 ATP ATP . R 4 MG F 1 1002 1002 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 . . . H 3 177.099 143.007 207.918 1 248.36 ? PG ATP 1001 A 1 HETATM 2 O O1G ATP . . . H 3 175.74 142.405 207.739 1 248.36 ? O1G ATP 1001 A 1 HETATM 3 O O2G ATP . . . H 3 177.912 143.191 206.685 1 248.36 ? O2G ATP 1001 A 1 HETATM 4 O O3G ATP . . . H 3 177.162 144.109 208.933 1 248.36 ? O3G ATP 1001 A 1 HETATM 5 P PB ATP . . . H 3 177.57 140.39 208.217 1 248.36 ? PB ATP 1001 A 1 HETATM 6 O O1B ATP . . . H 3 177.116 140.349 206.792 1 248.36 ? O1B ATP 1001 A 1 HETATM 7 O O2B ATP . . . H 3 176.694 140.079 209.383 1 248.36 ? O2B ATP 1001 A 1 HETATM 8 O O3B ATP . . . H 3 177.998 141.871 208.552 1 248.36 ? O3B ATP 1001 A 1 HETATM 9 P PA ATP . . . H 3 179.324 138.8 207.028 1 248.36 ? PA ATP 1001 A 1 HETATM 10 O O1A ATP . . . H 3 179.77 139.862 206.07 1 248.36 ? O1A ATP 1001 A 1 HETATM 11 O O2A ATP . . . H 3 178.218 137.868 206.621 1 248.36 ? O2A ATP 1001 A 1 HETATM 12 O O3A ATP . . . H 3 178.904 139.571 208.334 1 248.36 ? O3A ATP 1001 A 1 HETATM 13 O O5' ATP . . . H 3 180.59 138.013 207.603 1 248.36 ? O5' ATP 1001 A 1 HETATM 14 C C5' ATP . . . H 3 181.817 138.103 206.905 1 248.36 ? C5' ATP 1001 A 1 HETATM 15 C C4' ATP . . . H 3 182.862 137.34 207.689 1 248.36 ? C4' ATP 1001 A 1 HETATM 16 O O4' ATP . . . H 3 182.276 136.732 208.829 1 248.36 ? O4' ATP 1001 A 1 HETATM 17 C C3' ATP . . . H 3 183.511 136.247 206.859 1 248.36 ? C3' ATP 1001 A 1 HETATM 18 O O3' ATP . . . H 3 184.908 136.506 206.838 1 248.36 ? O3' ATP 1001 A 1 HETATM 19 C C2' ATP . . . H 3 183.206 134.988 207.613 1 248.36 ? C2' ATP 1001 A 1 HETATM 20 O O2' ATP . . . H 3 184.312 134.098 207.68 1 248.36 ? O2' ATP 1001 A 1 HETATM 21 C C1' ATP . . . H 3 182.816 135.434 209.002 1 248.36 ? C1' ATP 1001 A 1 HETATM 22 N N9 ATP . . . H 3 181.765 134.544 209.502 1 248.36 ? N9 ATP 1001 A 1 HETATM 23 C C8 ATP . . . H 3 180.641 134.965 210.069 1 248.36 ? C8 ATP 1001 A 1 HETATM 24 N N7 ATP . . . H 3 179.864 133.914 210.403 1 248.36 ? N7 ATP 1001 A 1 HETATM 25 C C5 ATP . . . H 3 180.494 132.794 210.063 1 248.36 ? C5 ATP 1001 A 1 HETATM 26 C C6 ATP . . . H 3 180.217 131.352 210.15 1 248.36 ? C6 ATP 1001 A 1 HETATM 27 N N6 ATP . . . H 3 179.068 130.906 210.69 1 248.36 ? N6 ATP 1001 A 1 HETATM 28 N N1 ATP . . . H 3 181.147 130.517 209.676 1 248.36 ? N1 ATP 1001 A 1 HETATM 29 C C2 ATP . . . H 3 182.291 130.978 209.14 1 248.36 ? C2 ATP 1001 A 1 HETATM 30 N N3 ATP . . . H 3 182.595 132.272 209.028 1 248.36 ? N3 ATP 1001 A 1 HETATM 31 C C4 ATP . . . H 3 181.758 133.217 209.479 1 248.36 ? C4 ATP 1001 A 1 HETATM 32 H "H5'1" ATP . . . H 3 182.158 139.123 206.906 1 248.36 ? "H5'1" ATP 1001 A 1 HETATM 33 H "H5'2" ATP . . . H 3 181.675 137.821 205.865 1 248.36 ? "H5'2" ATP 1001 A 1 HETATM 34 H H4' ATP . . . H 3 183.643 138.047 208.006 1 248.36 ? H4' ATP 1001 A 1 HETATM 35 H H3' ATP . . . H 3 183.145 136.129 205.832 1 248.36 ? H3' ATP 1001 A 1 HETATM 36 H HO3' ATP . . . H 3 185.35 135.905 206.223 1 248.36 ? HO3' ATP 1001 A 1 HETATM 37 H H2' ATP . . . H 3 182.364 134.521 207.082 1 248.36 ? H2' ATP 1001 A 1 HETATM 38 H HO2' ATP . . . H 3 184.529 133.777 206.794 1 248.36 ? HO2' ATP 1001 A 1 HETATM 39 H H1' ATP . . . H 3 183.693 135.444 209.665 1 248.36 ? H1' ATP 1001 A 1 HETATM 40 H H8 ATP . . . H 3 180.379 136 210.224 1 248.36 ? H8 ATP 1001 A 1 HETATM 41 H HN61 ATP . . . H 3 178.385 131.559 211.042 1 248.36 ? HN61 ATP 1001 A 1 HETATM 42 H HN62 ATP . . . H 3 178.884 129.924 210.737 1 248.36 ? HN62 ATP 1001 A 1 HETATM 43 H H2 ATP . . . H 3 183.006 130.263 208.764 1 248.36 ? H2 ATP 1001 A 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 139 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #