data_8VTK # _model_server_result.job_id ptvHe9GrAfIfAF5ljkCO1g _model_server_result.datetime_utc '2025-08-02 20:28:20' _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 8vtk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":305}' # _entry.id 8VTK # _exptl.entry_id 8VTK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 863.343 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description UBIQUINONE-10 _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 120 _cell.entry_id 8VTK _cell.length_a 140.95 _cell.length_b 140.95 _cell.length_c 186.72 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VTK _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 x,y,z _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 7 _struct_asym.id H _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 C C LEU 208 M LEU 209 1_555 C N 2L5 209 M 2L5 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale2 C C 2L5 209 M 2L5 210 1_555 C N GLY 210 M GLY 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? # _chem_comp.formula 'C59 H90 O4' _chem_comp.formula_weight 863.343 _chem_comp.id U10 _chem_comp.mon_nstd_flag . _chem_comp.name UBIQUINONE-10 _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Coenzyme Q10' # 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 C1 C2 U10 sing 1077 n n C1 C6 U10 doub 1078 n n C1 C1M U10 sing 1079 n n C2 C3 U10 sing 1080 n n C2 O2 U10 doub 1081 n n C3 C4 U10 doub 1082 n n C3 O3 U10 sing 1083 n n C4 C5 U10 sing 1084 n n C4 O4 U10 sing 1085 n n C5 C6 U10 sing 1086 n n C5 O5 U10 doub 1087 n n C6 C7 U10 sing 1088 n n C1M H1M1 U10 sing 1089 n n C1M H1M2 U10 sing 1090 n n C1M H1M3 U10 sing 1091 n n C3M O3 U10 sing 1092 n n C3M H3M1 U10 sing 1093 n n C3M H3M2 U10 sing 1094 n n C3M H3M3 U10 sing 1095 n n C4M O4 U10 sing 1096 n n C4M H4M1 U10 sing 1097 n n C4M H4M2 U10 sing 1098 n n C4M H4M3 U10 sing 1099 n n C7 C8 U10 sing 1100 n n C7 H71 U10 sing 1101 n n C7 H72 U10 sing 1102 n n C8 C9 U10 doub 1103 e n C8 H8 U10 sing 1104 n n C9 C10 U10 sing 1105 n n C9 C11 U10 sing 1106 n n C10 H101 U10 sing 1107 n n C10 H102 U10 sing 1108 n n C10 H103 U10 sing 1109 n n C11 C12 U10 sing 1110 n n C11 H111 U10 sing 1111 n n C11 H112 U10 sing 1112 n n C12 C13 U10 sing 1113 n n C12 H121 U10 sing 1114 n n C12 H122 U10 sing 1115 n n C13 C14 U10 doub 1116 e n C13 H13 U10 sing 1117 n n C14 C15 U10 sing 1118 n n C14 C16 U10 sing 1119 n n C15 H151 U10 sing 1120 n n C15 H152 U10 sing 1121 n n C15 H153 U10 sing 1122 n n C16 C17 U10 sing 1123 n n C16 H161 U10 sing 1124 n n C16 H162 U10 sing 1125 n n C17 C18 U10 sing 1126 n n C17 H171 U10 sing 1127 n n C17 H172 U10 sing 1128 n n C18 C19 U10 doub 1129 e n C18 H18 U10 sing 1130 n n C19 C20 U10 sing 1131 n n C19 C21 U10 sing 1132 n n C20 H201 U10 sing 1133 n n C20 H202 U10 sing 1134 n n C20 H203 U10 sing 1135 n n C21 C22 U10 sing 1136 n n C21 H211 U10 sing 1137 n n C21 H212 U10 sing 1138 n n C22 C23 U10 sing 1139 n n C22 H221 U10 sing 1140 n n C22 H222 U10 sing 1141 n n C23 C24 U10 doub 1142 e n C23 H23 U10 sing 1143 n n C24 C25 U10 sing 1144 n n C24 C26 U10 sing 1145 n n C25 H251 U10 sing 1146 n n C25 H252 U10 sing 1147 n n C25 H253 U10 sing 1148 n n C26 C27 U10 sing 1149 n n C26 H261 U10 sing 1150 n n C26 H262 U10 sing 1151 n n C27 C28 U10 sing 1152 n n C27 H271 U10 sing 1153 n n C27 H272 U10 sing 1154 n n C28 C29 U10 doub 1155 e n C28 H28 U10 sing 1156 n n C29 C30 U10 sing 1157 n n C29 C31 U10 sing 1158 n n C30 H301 U10 sing 1159 n n C30 H302 U10 sing 1160 n n C30 H303 U10 sing 1161 n n C31 C32 U10 sing 1162 n n C31 H311 U10 sing 1163 n n C31 H312 U10 sing 1164 n n C32 C33 U10 sing 1165 n n C32 H321 U10 sing 1166 n n C32 H322 U10 sing 1167 n n C33 C34 U10 doub 1168 e n C33 H33 U10 sing 1169 n n C34 C35 U10 sing 1170 n n C34 C36 U10 sing 1171 n n C35 H351 U10 sing 1172 n n C35 H352 U10 sing 1173 n n C35 H353 U10 sing 1174 n n C36 C37 U10 sing 1175 n n C36 H361 U10 sing 1176 n n C36 H362 U10 sing 1177 n n C37 C38 U10 sing 1178 n n C37 H371 U10 sing 1179 n n C37 H372 U10 sing 1180 n n C38 C39 U10 doub 1181 e n C38 H38 U10 sing 1182 n n C39 C40 U10 sing 1183 n n C39 C41 U10 sing 1184 n n C40 H401 U10 sing 1185 n n C40 H402 U10 sing 1186 n n C40 H403 U10 sing 1187 n n C41 C42 U10 sing 1188 n n C41 H411 U10 sing 1189 n n C41 H412 U10 sing 1190 n n C42 C43 U10 sing 1191 n n C42 H421 U10 sing 1192 n n C42 H422 U10 sing 1193 n n C43 C44 U10 doub 1194 e n C43 H43 U10 sing 1195 n n C44 C45 U10 sing 1196 n n C44 C46 U10 sing 1197 n n C45 H451 U10 sing 1198 n n C45 H452 U10 sing 1199 n n C45 H453 U10 sing 1200 n n C46 C47 U10 sing 1201 n n C46 H461 U10 sing 1202 n n C46 H462 U10 sing 1203 n n C47 C48 U10 sing 1204 n n C47 H471 U10 sing 1205 n n C47 H472 U10 sing 1206 n n C48 C49 U10 doub 1207 e n C48 H48 U10 sing 1208 n n C49 C50 U10 sing 1209 n n C49 C51 U10 sing 1210 n n C50 H501 U10 sing 1211 n n C50 H502 U10 sing 1212 n n C50 H503 U10 sing 1213 n n C51 C52 U10 sing 1214 n n C51 H511 U10 sing 1215 n n C51 H512 U10 sing 1216 n n C52 C53 U10 sing 1217 n n C52 H521 U10 sing 1218 n n C52 H522 U10 sing 1219 n n C53 C54 U10 doub 1220 n n C53 H53 U10 sing 1221 n n C54 C55 U10 sing 1222 n n C54 C56 U10 sing 1223 n n C55 H551 U10 sing 1224 n n C55 H552 U10 sing 1225 n n C55 H553 U10 sing 1226 n n C56 H561 U10 sing 1227 n n C56 H562 U10 sing 1228 n n C56 H563 U10 sing 1229 n n # _atom_sites.entry_id 8VTK _atom_sites.fract_transf_matrix[1][1] 0.007095 _atom_sites.fract_transf_matrix[1][2] 0.004096 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008192 _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] 0.005356 _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 D 4 FE L 1 301 406 FE FE . E 5 BPH L 1 302 407 BPH BPH . F 6 BCL L 1 303 301 BCL BCL . G 5 BPH L 1 304 302 BPH BPH . H 7 U10 L 1 305 303 U10 U10 . I 6 BCL L 1 306 304 BCL BCL . J 8 CL L 1 307 306 CL CL . K 6 BCL M 1 401 401 BCL BCL . L 9 LDA M 1 402 403 LDA LDA . M 9 LDA M 1 403 405 LDA LDA . N 10 SPO M 1 404 409 SPO SPO . O 11 CDL M 1 405 410 CDL CDL . P 6 BCL M 1 406 305 BCL BCL . Q 12 HOH H 1 301 3 HOH HOH . Q 12 HOH H 2 302 7 HOH HOH . Q 12 HOH H 3 303 2 HOH HOH . Q 12 HOH H 4 304 12 HOH HOH . Q 12 HOH H 5 305 9 HOH HOH . R 12 HOH L 1 401 15 HOH HOH . R 12 HOH L 2 402 6 HOH HOH . R 12 HOH L 3 403 11 HOH HOH . R 12 HOH L 4 404 1 HOH HOH . S 12 HOH M 1 501 13 HOH HOH . S 12 HOH M 2 502 8 HOH HOH . S 12 HOH M 3 503 14 HOH HOH . S 12 HOH M 4 504 17 HOH HOH . S 12 HOH M 5 505 16 HOH HOH . S 12 HOH M 6 506 19 HOH HOH . S 12 HOH M 7 507 20 HOH HOH . S 12 HOH M 8 508 10 HOH HOH . S 12 HOH M 9 509 5 HOH HOH . S 12 HOH M 10 510 18 HOH HOH . # 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 C C1 U10 . . . H 7 -37.165 45.056 -6.062 1 143.43 ? C1 U10 305 L 1 HETATM 2 C C2 U10 . . . H 7 -35.991 45.201 -5.317 1 145.16 ? C2 U10 305 L 1 HETATM 3 C C3 U10 . . . H 7 -35.001 46.122 -5.741 1 150.66 ? C3 U10 305 L 1 HETATM 4 C C4 U10 . . . H 7 -35.204 46.881 -6.926 1 151.06 ? C4 U10 305 L 1 HETATM 5 C C5 U10 . . . H 7 -36.404 46.725 -7.648 1 152.21 ? C5 U10 305 L 1 HETATM 6 C C6 U10 . . . H 7 -37.372 45.81 -7.224 1 149.91 ? C6 U10 305 L 1 HETATM 7 C C1M U10 . . . H 7 -38.211 44.086 -5.604 1 128.89 ? C1M U10 305 L 1 HETATM 8 C C3M U10 . . . H 7 -33.955 46.92 -3.844 1 124.17 ? C3M U10 305 L 1 HETATM 9 C C4M U10 . . . H 7 -33.794 48.034 -8.407 1 129.09 ? C4M U10 305 L 1 HETATM 10 C C7 U10 . . . H 7 -38.741 45.887 -7.871 1 141.77 ? C7 U10 305 L 1 HETATM 11 C C8 U10 . . . H 7 -38.85 44.901 -9.006 1 136.67 ? C8 U10 305 L 1 HETATM 12 C C9 U10 . . . H 7 -40.074 44.105 -9.063 1 132.37 ? C9 U10 305 L 1 HETATM 13 C C10 U10 . . . H 7 -41.395 44.823 -9.083 1 121.62 ? C10 U10 305 L 1 HETATM 14 C C11 U10 . . . H 7 -39.967 42.595 -9.08 1 117.89 ? C11 U10 305 L 1 HETATM 15 O O2 U10 . . . H 7 -35.874 44.532 -4.28 1 126.06 ? O2 U10 305 L 1 HETATM 16 O O3 U10 . . . H 7 -33.951 46.254 -5.087 1 135.36 ? O3 U10 305 L 1 HETATM 17 O O4 U10 . . . H 7 -34.495 47.877 -7.183 1 140.42 ? O4 U10 305 L 1 HETATM 18 O O5 U10 . . . H 7 -36.801 47.646 -8.372 1 148.81 ? O5 U10 305 L 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 95 _model_server_stats.query_time_ms 547 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 18 #