data_9C87 # _model_server_result.job_id 3SAO8UDhJfQqEnzizXdOBA _model_server_result.datetime_utc '2024-10-26 04:28:07' _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 9c87 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Z","auth_seq_id":500}' # _entry.id 9C87 # _exptl.entry_id 9C87 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 3 _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 9C87 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 9C87 _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 21-meric _pdbx_struct_assembly.oligomeric_count 21 _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 _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 ? 4 V N N ? 4 X N N ? 4 Z 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 90 A THR 126 1_555 W MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc2 V O2B ATP . A ATP 500 1_555 W MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? metalc ? metalc3 V O1A ATP . A ATP 500 1_555 W MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc4 V O3A ATP . A ATP 500 1_555 W MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc5 B OG1 THR 90 B THR 126 1_555 Y MG MG . B MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.449 ? metalc ? metalc6 X O2B ATP . B ATP 500 1_555 Y MG MG . B MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc7 X O3B ATP . B ATP 500 1_555 Y MG MG . B MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.852 ? metalc ? metalc8 X O1A ATP . B ATP 500 1_555 Y MG MG . B MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc9 X O3A ATP . B ATP 500 1_555 Y MG MG . B MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.215 ? metalc ? metalc10 C OG1 THR 90 C THR 126 1_555 AA MG MG . C MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.683 ? metalc ? metalc11 Z O2G ATP . C ATP 500 1_555 AA MG MG . C MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? metalc ? metalc12 Z O2B ATP . C ATP 500 1_555 AA MG MG . C MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc13 Z O3B ATP . C ATP 500 1_555 AA MG MG . C MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? metalc ? metalc14 D OG1 THR 90 D THR 126 1_555 CA MG MG . D MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? metalc ? metalc15 BA O1B ADP . D ADP 500 1_555 CA MG MG . D MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? metalc ? metalc16 BA O2B ADP . D ADP 500 1_555 CA MG MG . D MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc17 BA O1A ADP . D ADP 500 1_555 CA MG MG . D MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.925 ? metalc ? metalc18 BA O2A ADP . D ADP 500 1_555 CA MG MG . D MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc19 BA O3A ADP . D ADP 500 1_555 CA MG MG . D MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.921 ? # _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 9C87 _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 V 4 ATP A 1 500 500 ATP ATP . W 5 MG A 1 501 501 MG MG . X 4 ATP B 1 500 500 ATP ATP . Y 5 MG B 1 501 501 MG MG . Z 4 ATP C 1 500 500 ATP ATP . AA 5 MG C 1 501 501 MG MG . BA 6 ADP D 1 500 500 ADP ADP . CA 5 MG D 1 501 501 MG MG . DA 6 ADP E 1 501 501 ADP ADP . EA 6 ADP F 1 500 500 ADP ADP . FA 7 MTX S 1 201 201 MTX MTX . # 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 . . . Z 4 134.805 167.914 170.31 1 121.54 ? PG ATP 500 C 1 HETATM 2 O O1G ATP . . . Z 4 133.916 168.169 169.117 1 121.54 ? O1G ATP 500 C 1 HETATM 3 O O2G ATP . . . Z 4 134.064 167.543 171.571 1 121.54 ? O2G ATP 500 C 1 HETATM 4 O O3G ATP . . . Z 4 136.014 167.059 170.018 1 121.54 ? O3G ATP 500 C 1 HETATM 5 P PB ATP . . . Z 4 134.455 170.591 171.012 1 121.54 ? PB ATP 500 C 1 HETATM 6 O O1B ATP . . . Z 4 133.81 171.089 169.742 1 121.54 ? O1B ATP 500 C 1 HETATM 7 O O2B ATP . . . Z 4 133.598 170.182 172.186 1 121.54 ? O2B ATP 500 C 1 HETATM 8 O O3B ATP . . . Z 4 135.424 169.362 170.64 1 121.54 ? O3B ATP 500 C 1 HETATM 9 P PA ATP . . . Z 4 134.978 173.002 172.314 1 121.54 ? PA ATP 500 C 1 HETATM 10 O O1A ATP . . . Z 4 134.174 172.524 173.498 1 121.54 ? O1A ATP 500 C 1 HETATM 11 O O2A ATP . . . Z 4 134.353 173.972 171.34 1 121.54 ? O2A ATP 500 C 1 HETATM 12 O O3A ATP . . . Z 4 135.497 171.707 171.514 1 121.54 ? O3A ATP 500 C 1 HETATM 13 O O5' ATP . . . Z 4 136.351 173.632 172.867 1 121.54 ? O5' ATP 500 C 1 HETATM 14 C C5' ATP . . . Z 4 136.383 174.236 174.157 1 121.54 ? C5' ATP 500 C 1 HETATM 15 C C4' ATP . . . Z 4 137.532 175.23 174.246 1 121.54 ? C4' ATP 500 C 1 HETATM 16 O O4' ATP . . . Z 4 137.412 176.19 173.195 1 121.54 ? O4' ATP 500 C 1 HETATM 17 C C3' ATP . . . Z 4 137.502 175.974 175.569 1 121.54 ? C3' ATP 500 C 1 HETATM 18 O O3' ATP . . . Z 4 138.79 175.946 176.193 1 121.54 ? O3' ATP 500 C 1 HETATM 19 C C2' ATP . . . Z 4 137.086 177.39 175.223 1 121.54 ? C2' ATP 500 C 1 HETATM 20 O O2' ATP . . . Z 4 137.929 178.355 175.862 1 121.54 ? O2' ATP 500 C 1 HETATM 21 C C1' ATP . . . Z 4 137.19 177.506 173.708 1 121.54 ? C1' ATP 500 C 1 HETATM 22 N N9 ATP . . . Z 4 135.94 178.051 173.113 1 121.54 ? N9 ATP 500 C 1 HETATM 23 C C8 ATP . . . Z 4 135.214 177.445 172.151 1 121.54 ? C8 ATP 500 C 1 HETATM 24 N N7 ATP . . . Z 4 134.138 178.199 171.814 1 121.54 ? N7 ATP 500 C 1 HETATM 25 C C5 ATP . . . Z 4 134.166 179.312 172.563 1 121.54 ? C5 ATP 500 C 1 HETATM 26 C C6 ATP . . . Z 4 133.323 180.519 172.703 1 121.54 ? C6 ATP 500 C 1 HETATM 27 N N6 ATP . . . Z 4 132.21 180.675 171.948 1 121.54 ? N6 ATP 500 C 1 HETATM 28 N N1 ATP . . . Z 4 133.705 181.449 173.604 1 121.54 ? N1 ATP 500 C 1 HETATM 29 C C2 ATP . . . Z 4 134.81 181.301 174.359 1 121.54 ? C2 ATP 500 C 1 HETATM 30 N N3 ATP . . . Z 4 135.617 180.226 174.277 1 121.54 ? N3 ATP 500 C 1 HETATM 31 C C4 ATP . . . Z 4 135.359 179.217 173.412 1 121.54 ? C4 ATP 500 C 1 HETATM 32 H "H5'1" ATP . . . Z 4 136.504 173.464 174.92 1 121.54 ? "H5'1" ATP 500 C 1 HETATM 33 H "H5'2" ATP . . . Z 4 135.439 174.75 174.343 1 121.54 ? "H5'2" ATP 500 C 1 HETATM 34 H H4' ATP . . . Z 4 138.484 174.689 174.16 1 121.54 ? H4' ATP 500 C 1 HETATM 35 H H3' ATP . . . Z 4 136.744 175.522 176.224 1 121.54 ? H3' ATP 500 C 1 HETATM 36 H HO3' ATP . . . Z 4 138.719 176.273 177.1 1 121.54 ? HO3' ATP 500 C 1 HETATM 37 H H2' ATP . . . Z 4 136.044 177.524 175.537 1 121.54 ? H2' ATP 500 C 1 HETATM 38 H HO2' ATP . . . Z 4 137.741 178.372 176.81 1 121.54 ? HO2' ATP 500 C 1 HETATM 39 H H1' ATP . . . Z 4 138.04 178.156 173.458 1 121.54 ? H1' ATP 500 C 1 HETATM 40 H H8 ATP . . . Z 4 135.449 176.486 171.705 1 121.54 ? H8 ATP 500 C 1 HETATM 41 H HN61 ATP . . . Z 4 131.949 179.962 171.282 1 121.54 ? HN61 ATP 500 C 1 HETATM 42 H HN62 ATP . . . Z 4 131.641 181.502 172.05 1 121.54 ? HN62 ATP 500 C 1 HETATM 43 H H2 ATP . . . Z 4 135.063 182.083 175.063 1 121.54 ? H2 ATP 500 C 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 149 _model_server_stats.query_time_ms 353 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 43 #