data_6TDY # _model_server_result.job_id pqMvagjbQWBEbAW_I5X3YQ _model_server_result.datetime_utc '2024-11-04 23:16:18' _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 6tdy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"AA","auth_seq_id":601}' # _entry.id 6TDY # _exptl.entry_id 6TDY _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 12 _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 6TDY _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6TDY _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 26-meric _pdbx_struct_assembly.oligomeric_count 26 _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,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA _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 ? 12 AA N N ? 12 CA N N ? 12 EA N N ? 12 JA 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 190 A THR 191 1_555 BA MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc2 AA O3G ATP . A ATP 601 1_555 BA MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc3 AA O2B ATP . A ATP 601 1_555 BA MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.966 ? metalc ? metalc4 B OG1 THR 190 B THR 191 1_555 DA MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc5 CA O3G ATP . B ATP 601 1_555 DA MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? metalc ? metalc6 CA O2B ATP . B ATP 601 1_555 DA MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? metalc ? metalc7 C OG1 THR 190 C THR 191 1_555 FA MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc8 EA O1G ATP . C ATP 601 1_555 FA MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? metalc ? metalc9 EA O2B ATP . C ATP 601 1_555 FA MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.876 ? metalc ? metalc10 D OG1 THR 167 D THR 174 1_555 HA MG MG . D MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc11 GA O3B ADP . D ADP 601 1_555 HA MG MG . D MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc12 F OG1 THR 167 F THR 174 1_555 KA MG MG . F MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc13 JA O3G ATP . F ATP 601 1_555 KA MG MG . F MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc14 JA O2B ATP . F ATP 601 1_555 KA MG MG . F MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.941 ? # _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 6TDY _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 AA 12 ATP A 1 601 2 ATP ATP . BA 13 MG A 1 602 1 MG MG . CA 12 ATP B 1 601 3 ATP ATP . DA 13 MG B 1 602 2 MG MG . EA 12 ATP C 1 601 1 ATP ATP . FA 13 MG C 1 602 5 MG MG . GA 14 ADP D 1 601 5 ADP ADP . HA 13 MG D 1 602 4 MG MG . IA 15 TRT E 1 600 600 TRT TRT . JA 12 ATP F 1 601 4 ATP ATP . KA 13 MG F 1 602 3 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 . . . AA 12 309.919 195.863 313.374 1 35.52 ? PG ATP 601 A 1 HETATM 2 O O1G ATP . . . AA 12 310.92 196.591 312.52 1 35.52 ? O1G ATP 601 A 1 HETATM 3 O O2G ATP . . . AA 12 308.987 196.764 314.138 1 35.52 ? O2G ATP 601 A 1 HETATM 4 O O3G ATP . . . AA 12 310.483 194.711 314.172 1 35.52 ? O3G ATP 601 A 1 HETATM 5 P PB ATP . . . AA 12 309.509 193.877 311.482 1 35.52 ? PB ATP 601 A 1 HETATM 6 O O1B ATP . . . AA 12 310.475 194.391 310.458 1 35.52 ? O1B ATP 601 A 1 HETATM 7 O O2B ATP . . . AA 12 309.913 192.808 312.465 1 35.52 ? O2B ATP 601 A 1 HETATM 8 O O3B ATP . . . AA 12 308.97 195.139 312.307 1 35.52 ? O3B ATP 601 A 1 HETATM 9 P PA ATP . . . AA 12 307.13 192.39 311.294 1 35.52 ? PA ATP 601 A 1 HETATM 10 O O1A ATP . . . AA 12 306.725 192.908 312.649 1 35.52 ? O1A ATP 601 A 1 HETATM 11 O O2A ATP . . . AA 12 307.61 190.967 311.147 1 35.52 ? O2A ATP 601 A 1 HETATM 12 O O3A ATP . . . AA 12 308.198 193.423 310.682 1 35.52 ? O3A ATP 601 A 1 HETATM 13 O O5' ATP . . . AA 12 305.901 192.634 310.302 1 35.52 ? O5' ATP 601 A 1 HETATM 14 C C5' ATP . . . AA 12 305.475 193.974 310.161 1 35.52 ? C5' ATP 601 A 1 HETATM 15 C C4' ATP . . . AA 12 304.165 194.096 309.393 1 35.52 ? C4' ATP 601 A 1 HETATM 16 O O4' ATP . . . AA 12 304.295 193.452 308.136 1 35.52 ? O4' ATP 601 A 1 HETATM 17 C C3' ATP . . . AA 12 302.978 193.47 310.114 1 35.52 ? C3' ATP 601 A 1 HETATM 18 O O3' ATP . . . AA 12 301.989 194.47 310.348 1 35.52 ? O3' ATP 601 A 1 HETATM 19 C C2' ATP . . . AA 12 302.488 192.371 309.19 1 35.52 ? C2' ATP 601 A 1 HETATM 20 O O2' ATP . . . AA 12 301.061 192.256 309.118 1 35.52 ? O2' ATP 601 A 1 HETATM 21 C C1' ATP . . . AA 12 303.091 192.758 307.854 1 35.52 ? C1' ATP 601 A 1 HETATM 22 N N9 ATP . . . AA 12 303.357 191.583 307.007 1 35.52 ? N9 ATP 601 A 1 HETATM 23 C C8 ATP . . . AA 12 304.412 190.755 307.059 1 35.52 ? C8 ATP 601 A 1 HETATM 24 N N7 ATP . . . AA 12 304.303 189.788 306.119 1 35.52 ? N7 ATP 601 A 1 HETATM 25 C C5 ATP . . . AA 12 303.158 190.008 305.458 1 35.52 ? C5 ATP 601 A 1 HETATM 26 C C6 ATP . . . AA 12 302.425 189.37 304.36 1 35.52 ? C6 ATP 601 A 1 HETATM 27 N N6 ATP . . . AA 12 302.934 188.281 303.765 1 35.52 ? N6 ATP 601 A 1 HETATM 28 N N1 ATP . . . AA 12 301.262 189.92 303.968 1 35.52 ? N1 ATP 601 A 1 HETATM 29 C C2 ATP . . . AA 12 300.759 191.011 304.562 1 35.52 ? C2 ATP 601 A 1 HETATM 30 N N3 ATP . . . AA 12 301.368 191.637 305.573 1 35.52 ? N3 ATP 601 A 1 HETATM 31 C C4 ATP . . . AA 12 302.542 191.187 306.053 1 35.52 ? C4 ATP 601 A 1 HETATM 32 H "H5'1" ATP . . . AA 12 306.247 194.528 309.644 1 35.52 ? "H5'1" ATP 601 A 1 HETATM 33 H "H5'2" ATP . . . AA 12 305.37 194.41 311.147 1 35.52 ? "H5'2" ATP 601 A 1 HETATM 34 H H4' ATP . . . AA 12 303.954 195.154 309.226 1 35.52 ? H4' ATP 601 A 1 HETATM 35 H H3' ATP . . . AA 12 303.311 193.028 311.061 1 35.52 ? H3' ATP 601 A 1 HETATM 36 H HO3' ATP . . . AA 12 301.242 194.091 310.826 1 35.52 ? HO3' ATP 601 A 1 HETATM 37 H H2' ATP . . . AA 12 302.909 191.414 309.523 1 35.52 ? H2' ATP 601 A 1 HETATM 38 H HO2' ATP . . . AA 12 300.702 192.015 309.982 1 35.52 ? HO2' ATP 601 A 1 HETATM 39 H H1' ATP . . . AA 12 302.394 193.422 307.351 1 35.52 ? H1' ATP 601 A 1 HETATM 40 H H8 ATP . . . AA 12 305.233 190.84 307.753 1 35.52 ? H8 ATP 601 A 1 HETATM 41 H HN61 ATP . . . AA 12 303.811 187.906 304.087 1 35.52 ? HN61 ATP 601 A 1 HETATM 42 H HN62 ATP . . . AA 12 302.436 187.847 303.006 1 35.52 ? HN62 ATP 601 A 1 HETATM 43 H H2 ATP . . . AA 12 299.818 191.404 304.214 1 35.52 ? H2 ATP 601 A 1 # _model_server_stats.io_time_ms 30 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 424 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 43 #