data_6RDW # _model_server_result.job_id Hu-B_B5gysjCpJFT_VSZ7g _model_server_result.datetime_utc '2024-11-02 19:35:09' _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 6rdw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"KA","auth_seq_id":1001}' # _entry.id 6RDW # _exptl.entry_id 6RDW _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 20 _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 6RDW _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RDW _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 31-meric _pdbx_struct_assembly.oligomeric_count 31 _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,LA,MA,NA,OA,PA _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 ? 20 GA N N ? 20 IA N N ? 20 KA 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 U NE2 HIS 248 M HIS 248 1_555 FA ZN ZN . M ZN 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? metalc ? metalc2 Z OG1 THR 232 T THR 232 1_555 HA MG MG . T MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? metalc ? metalc3 GA O1G ATP . T ATP 1001 1_555 HA MG MG . T MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.733 ? metalc ? metalc4 GA O3G ATP . T ATP 1001 1_555 HA MG MG . T MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.918 ? metalc ? metalc5 GA O2B ATP . T ATP 1001 1_555 HA MG MG . T MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? metalc ? metalc6 AA OG1 THR 232 U THR 232 1_555 JA MG MG . U MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc7 IA O1G ATP . U ATP 1001 1_555 JA MG MG . U MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.632 ? metalc ? metalc8 IA O2B ATP . U ATP 1001 1_555 JA MG MG . U MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc9 BA OG1 THR 232 V THR 232 1_555 LA MG MG . V MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? metalc ? metalc10 KA O1G ATP . V ATP 1001 1_555 LA MG MG . V MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc11 KA O2B ATP . V ATP 1001 1_555 LA MG MG . V MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc12 CA OG1 THR 190 X THR 190 1_555 NA MG MG . X MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? metalc ? metalc13 CA OE2 GLU 215 X GLU 215 1_555 NA MG MG . X MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc14 CA OE1 GLU 219 X GLU 219 1_555 NA MG MG . X MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? metalc ? metalc15 MA O2B ADP . X ADP 601 1_555 NA MG MG . X MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.835 ? metalc ? metalc16 DA OG1 THR 190 Y THR 190 1_555 PA MG MG . Y MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc17 DA OE2 GLU 215 Y GLU 215 1_555 PA MG MG . Y MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc18 DA OE2 GLU 219 Y GLU 219 1_555 PA MG MG . Y MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc19 OA O3B ADP . Y ADP 601 1_555 PA MG MG . Y MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? # _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 6RDW _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 FA 19 ZN M 1 600 600 ZN ZN . GA 20 ATP T 1 1001 1001 ATP ATP . HA 21 MG T 1 1002 1002 MG MG . IA 20 ATP U 1 1001 1001 ATP ATP . JA 21 MG U 1 1002 1002 MG MG . KA 20 ATP V 1 1001 1001 ATP ATP . LA 21 MG V 1 1002 1002 MG MG . MA 22 ADP X 1 601 1028 ADP ADP . NA 21 MG X 1 602 1029 MG MG . OA 22 ADP Y 1 601 1028 ADP ADP . PA 21 MG Y 1 602 1029 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 . . . KA 20 119.783 269.945 256.435 1 30.66 ? PG ATP 1001 V 1 HETATM 2 O O1G ATP . . . KA 20 118.747 268.861 256.386 1 30.66 ? O1G ATP 1001 V 1 HETATM 3 O O2G ATP . . . KA 20 121.075 269.566 257.103 1 30.66 ? O2G ATP 1001 V 1 HETATM 4 O O3G ATP . . . KA 20 119.261 271.301 256.818 1 30.66 ? O3G ATP 1001 V 1 HETATM 5 P PB ATP . . . KA 20 119.027 269.844 253.805 1 30.66 ? PB ATP 1001 V 1 HETATM 6 O O1B ATP . . . KA 20 118.964 268.373 253.536 1 30.66 ? O1B ATP 1001 V 1 HETATM 7 O O2B ATP . . . KA 20 117.802 270.576 254.253 1 30.66 ? O2B ATP 1001 V 1 HETATM 8 O O3B ATP . . . KA 20 120.166 270.078 254.894 1 30.66 ? O3B ATP 1001 V 1 HETATM 9 P PA ATP . . . KA 20 118.791 271.625 251.708 1 30.66 ? PA ATP 1001 V 1 HETATM 10 O O1A ATP . . . KA 20 117.695 270.861 251.039 1 30.66 ? O1A ATP 1001 V 1 HETATM 11 O O2A ATP . . . KA 20 118.455 272.791 252.593 1 30.66 ? O2A ATP 1001 V 1 HETATM 12 O O3A ATP . . . KA 20 119.652 270.556 252.519 1 30.66 ? O3A ATP 1001 V 1 HETATM 13 O O5' ATP . . . KA 20 119.804 272.151 250.592 1 30.66 ? O5' ATP 1001 V 1 HETATM 14 C C5' ATP . . . KA 20 121.091 272.584 250.996 1 30.66 ? C5' ATP 1001 V 1 HETATM 15 C C4' ATP . . . KA 20 121.512 273.79 250.18 1 30.66 ? C4' ATP 1001 V 1 HETATM 16 O O4' ATP . . . KA 20 121.643 273.427 248.814 1 30.66 ? O4' ATP 1001 V 1 HETATM 17 C C3' ATP . . . KA 20 120.455 274.857 250.266 1 30.66 ? C3' ATP 1001 V 1 HETATM 18 O O3' ATP . . . KA 20 121.096 276.075 250.62 1 30.66 ? O3' ATP 1001 V 1 HETATM 19 C C2' ATP . . . KA 20 119.923 275 248.871 1 30.66 ? C2' ATP 1001 V 1 HETATM 20 O O2' ATP . . . KA 20 119.811 276.384 248.565 1 30.66 ? O2' ATP 1001 V 1 HETATM 21 C C1' ATP . . . KA 20 120.968 274.365 247.989 1 30.66 ? C1' ATP 1001 V 1 HETATM 22 N N9 ATP . . . KA 20 120.359 273.67 246.833 1 30.66 ? N9 ATP 1001 V 1 HETATM 23 C C8 ATP . . . KA 20 119.703 272.503 246.86 1 30.66 ? C8 ATP 1001 V 1 HETATM 24 N N7 ATP . . . KA 20 119.28 272.137 245.632 1 30.66 ? N7 ATP 1001 V 1 HETATM 25 C C5 ATP . . . KA 20 119.681 273.09 244.793 1 30.66 ? C5 ATP 1001 V 1 HETATM 26 C C6 ATP . . . KA 20 119.566 273.335 243.352 1 30.66 ? C6 ATP 1001 V 1 HETATM 27 N N6 ATP . . . KA 20 118.927 272.452 242.557 1 30.66 ? N6 ATP 1001 V 1 HETATM 28 N N1 ATP . . . KA 20 120.115 274.455 242.854 1 30.66 ? N1 ATP 1001 V 1 HETATM 29 C C2 ATP . . . KA 20 120.754 275.332 243.641 1 30.66 ? C2 ATP 1001 V 1 HETATM 30 N N3 ATP . . . KA 20 120.896 275.174 244.964 1 30.66 ? N3 ATP 1001 V 1 HETATM 31 C C4 ATP . . . KA 20 120.385 274.094 245.582 1 30.66 ? C4 ATP 1001 V 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 93 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #