data_8UGD # _model_server_result.job_id PeQTyWSiZCI4sM0xAiphFA _model_server_result.datetime_utc '2024-11-15 04:59:45' _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 8ugd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"QA","auth_seq_id":504}' # _entry.id 8UGD # _exptl.entry_id 8UGD _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 863.343 _entity.id 14 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description UBIQUINONE-10 _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 8UGD _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8UGD _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 22-meric _pdbx_struct_assembly.oligomeric_count 22 _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,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 14 BA N N ? 14 CA N N ? 14 PA N N ? 14 QA 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 disulf ? disulf1 E SG CYS 222 3E CYS 222 1_555 E SG CYS 238 3E CYS 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf2 H SG CYS 37 3H CYS 49 1_555 H SG CYS 81 3H CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf3 H SG CYS 53 3H CYS 65 1_555 H SG CYS 67 3H CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 O SG CYS 236 3R CYS 236 1_555 O SG CYS 238 3R CYS 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.938 ? disulf ? disulf5 R SG CYS 37 3U CYS 24 1_555 R SG CYS 81 3U CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 R SG CYS 53 3U CYS 40 1_555 R SG CYS 67 3U CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 N SG CYS 122 3Q CYS 37 1_555 UA CAB HEC . 3Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.765 ? metalc ? metalc1 C NE2 HIS 83 3C HIS 83 1_555 Z FE HEM . 3C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? metalc ? metalc2 C NE2 HIS 182 3C HIS 182 1_555 Z FE HEM . 3C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc3 C NE2 HIS 196 3C HIS 196 1_555 AA FE HEM . 3C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc4 D NE2 HIS 126 3D HIS 129 1_555 FA FE HEC . 3D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.867 ? metalc ? metalc5 E SG CYS 217 3E CYS 217 1_555 IA FE1 FES . 3E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? metalc ? metalc6 E ND1 HIS 219 3E HIS 219 1_555 IA FE2 FES . 3E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? metalc ? metalc7 E SG CYS 236 3E CYS 236 1_555 IA FE1 FES . 3E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc8 E ND1 HIS 239 3E HIS 239 1_555 IA FE2 FES . 3E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? metalc ? metalc9 M NE2 HIS 83 3P HIS 83 1_555 NA FE HEM . 3P HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.478 ? metalc ? metalc10 M NE2 HIS 97 3P HIS 97 1_555 OA FE HEM . 3P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.723 ? metalc ? metalc11 M NE2 HIS 196 3P HIS 196 1_555 OA FE HEM . 3P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc12 N NE2 HIS 126 3Q HIS 41 1_555 UA FE HEC . 3Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.918 ? metalc ? metalc13 O SG CYS 217 3R CYS 217 1_555 XA FE1 FES . 3R FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc14 O ND1 HIS 219 3R HIS 219 1_555 XA FE2 FES . 3R FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc15 O SG CYS 236 3R CYS 236 1_555 XA FE1 FES . 3R FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc16 O SG CYS 238 3R CYS 238 1_555 XA FE1 FES . 3R FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc17 O ND1 HIS 239 3R HIS 239 1_555 XA FE2 FES . 3R FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? # _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 1054 n n C1 C6 U10 doub 1055 n n C1 C1M U10 sing 1056 n n C2 C3 U10 sing 1057 n n C2 O2 U10 doub 1058 n n C3 C4 U10 doub 1059 n n C3 O3 U10 sing 1060 n n C4 C5 U10 sing 1061 n n C4 O4 U10 sing 1062 n n C5 C6 U10 sing 1063 n n C5 O5 U10 doub 1064 n n C6 C7 U10 sing 1065 n n C1M H1M1 U10 sing 1066 n n C1M H1M2 U10 sing 1067 n n C1M H1M3 U10 sing 1068 n n C3M O3 U10 sing 1069 n n C3M H3M1 U10 sing 1070 n n C3M H3M2 U10 sing 1071 n n C3M H3M3 U10 sing 1072 n n C4M O4 U10 sing 1073 n n C4M H4M1 U10 sing 1074 n n C4M H4M2 U10 sing 1075 n n C4M H4M3 U10 sing 1076 n n C7 C8 U10 sing 1077 n n C7 H71 U10 sing 1078 n n C7 H72 U10 sing 1079 n n C8 C9 U10 doub 1080 e n C8 H8 U10 sing 1081 n n C9 C10 U10 sing 1082 n n C9 C11 U10 sing 1083 n n C10 H101 U10 sing 1084 n n C10 H102 U10 sing 1085 n n C10 H103 U10 sing 1086 n n C11 C12 U10 sing 1087 n n C11 H111 U10 sing 1088 n n C11 H112 U10 sing 1089 n n C12 C13 U10 sing 1090 n n C12 H121 U10 sing 1091 n n C12 H122 U10 sing 1092 n n C13 C14 U10 doub 1093 e n C13 H13 U10 sing 1094 n n C14 C15 U10 sing 1095 n n C14 C16 U10 sing 1096 n n C15 H151 U10 sing 1097 n n C15 H152 U10 sing 1098 n n C15 H153 U10 sing 1099 n n C16 C17 U10 sing 1100 n n C16 H161 U10 sing 1101 n n C16 H162 U10 sing 1102 n n C17 C18 U10 sing 1103 n n C17 H171 U10 sing 1104 n n C17 H172 U10 sing 1105 n n C18 C19 U10 doub 1106 e n C18 H18 U10 sing 1107 n n C19 C20 U10 sing 1108 n n C19 C21 U10 sing 1109 n n C20 H201 U10 sing 1110 n n C20 H202 U10 sing 1111 n n C20 H203 U10 sing 1112 n n C21 C22 U10 sing 1113 n n C21 H211 U10 sing 1114 n n C21 H212 U10 sing 1115 n n C22 C23 U10 sing 1116 n n C22 H221 U10 sing 1117 n n C22 H222 U10 sing 1118 n n C23 C24 U10 doub 1119 e n C23 H23 U10 sing 1120 n n C24 C25 U10 sing 1121 n n C24 C26 U10 sing 1122 n n C25 H251 U10 sing 1123 n n C25 H252 U10 sing 1124 n n C25 H253 U10 sing 1125 n n C26 C27 U10 sing 1126 n n C26 H261 U10 sing 1127 n n C26 H262 U10 sing 1128 n n C27 C28 U10 sing 1129 n n C27 H271 U10 sing 1130 n n C27 H272 U10 sing 1131 n n C28 C29 U10 doub 1132 e n C28 H28 U10 sing 1133 n n C29 C30 U10 sing 1134 n n C29 C31 U10 sing 1135 n n C30 H301 U10 sing 1136 n n C30 H302 U10 sing 1137 n n C30 H303 U10 sing 1138 n n C31 C32 U10 sing 1139 n n C31 H311 U10 sing 1140 n n C31 H312 U10 sing 1141 n n C32 C33 U10 sing 1142 n n C32 H321 U10 sing 1143 n n C32 H322 U10 sing 1144 n n C33 C34 U10 doub 1145 e n C33 H33 U10 sing 1146 n n C34 C35 U10 sing 1147 n n C34 C36 U10 sing 1148 n n C35 H351 U10 sing 1149 n n C35 H352 U10 sing 1150 n n C35 H353 U10 sing 1151 n n C36 C37 U10 sing 1152 n n C36 H361 U10 sing 1153 n n C36 H362 U10 sing 1154 n n C37 C38 U10 sing 1155 n n C37 H371 U10 sing 1156 n n C37 H372 U10 sing 1157 n n C38 C39 U10 doub 1158 e n C38 H38 U10 sing 1159 n n C39 C40 U10 sing 1160 n n C39 C41 U10 sing 1161 n n C40 H401 U10 sing 1162 n n C40 H402 U10 sing 1163 n n C40 H403 U10 sing 1164 n n C41 C42 U10 sing 1165 n n C41 H411 U10 sing 1166 n n C41 H412 U10 sing 1167 n n C42 C43 U10 sing 1168 n n C42 H421 U10 sing 1169 n n C42 H422 U10 sing 1170 n n C43 C44 U10 doub 1171 e n C43 H43 U10 sing 1172 n n C44 C45 U10 sing 1173 n n C44 C46 U10 sing 1174 n n C45 H451 U10 sing 1175 n n C45 H452 U10 sing 1176 n n C45 H453 U10 sing 1177 n n C46 C47 U10 sing 1178 n n C46 H461 U10 sing 1179 n n C46 H462 U10 sing 1180 n n C47 C48 U10 sing 1181 n n C47 H471 U10 sing 1182 n n C47 H472 U10 sing 1183 n n C48 C49 U10 doub 1184 e n C48 H48 U10 sing 1185 n n C49 C50 U10 sing 1186 n n C49 C51 U10 sing 1187 n n C50 H501 U10 sing 1188 n n C50 H502 U10 sing 1189 n n C50 H503 U10 sing 1190 n n C51 C52 U10 sing 1191 n n C51 H511 U10 sing 1192 n n C51 H512 U10 sing 1193 n n C52 C53 U10 sing 1194 n n C52 H521 U10 sing 1195 n n C52 H522 U10 sing 1196 n n C53 C54 U10 doub 1197 n n C53 H53 U10 sing 1198 n n C54 C55 U10 sing 1199 n n C54 C56 U10 sing 1200 n n C55 H551 U10 sing 1201 n n C55 H552 U10 sing 1202 n n C55 H553 U10 sing 1203 n n C56 H561 U10 sing 1204 n n C56 H562 U10 sing 1205 n n C56 H563 U10 sing 1206 n n # _atom_sites.entry_id 8UGD _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 W 11 CDL 3A 1 501 31 CDL CDL . X 12 3PE 3A 1 502 32 3PE 3PE . Y 12 3PE 3A 1 503 33 3PE 3PE . Z 13 HEM 3C 1 501 501 HEM HEM . AA 13 HEM 3C 1 502 502 HEM HEM . BA 14 U10 3C 1 503 503 U10 U10 . CA 14 U10 3C 1 504 504 U10 U10 . DA 11 CDL 3C 1 505 17 CDL CDL . EA 12 3PE 3C 1 506 90 3PE 3PE . FA 15 HEC 3D 1 501 501 HEC HEC . GA 12 3PE 3D 1 502 91 3PE 3PE . HA 11 CDL 3D 1 503 94 CDL CDL . IA 16 FES 3E 1 301 301 FES FES . JA 17 PC1 3E 1 302 97 PC1 PC1 . KA 12 3PE 3G 1 101 7 3PE 3PE . LA 12 3PE 3N 1 501 133 3PE 3PE . MA 12 3PE 3N 1 502 169 3PE 3PE . NA 13 HEM 3P 1 501 501 HEM HEM . OA 13 HEM 3P 1 502 502 HEM HEM . PA 14 U10 3P 1 503 503 U10 U10 . QA 14 U10 3P 1 504 504 U10 U10 . RA 12 3PE 3P 1 505 93 3PE 3PE . SA 11 CDL 3P 1 506 166 CDL CDL . TA 11 CDL 3P 1 507 167 CDL CDL . UA 15 HEC 3Q 1 501 501 HEC HEC . VA 11 CDL 3Q 1 502 45 CDL CDL . WA 12 3PE 3Q 1 503 92 3PE 3PE . XA 16 FES 3R 1 301 301 FES FES . YA 17 PC1 3R 1 302 96 PC1 PC1 . ZA 12 3PE 3R 1 303 168 3PE 3PE . AB 17 PC1 3X 1 101 165 PC1 PC1 . BB 12 3PE 3Y 1 101 48 3PE 3PE . # 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 . . . QA 14 174.925 228.513 184.81 1 56.37 ? C1 U10 504 3P 1 HETATM 2 C C2 U10 . . . QA 14 175.926 228.014 183.871 1 56.37 ? C2 U10 504 3P 1 HETATM 3 C C3 U10 . . . QA 14 176.771 226.893 184.224 1 56.37 ? C3 U10 504 3P 1 HETATM 4 C C4 U10 . . . QA 14 176.619 226.368 185.549 1 56.37 ? C4 U10 504 3P 1 HETATM 5 C C5 U10 . . . QA 14 175.671 226.914 186.435 1 56.37 ? C5 U10 504 3P 1 HETATM 6 C C6 U10 . . . QA 14 174.811 227.962 186.054 1 56.37 ? C6 U10 504 3P 1 HETATM 7 C C1M U10 . . . QA 14 174.042 229.632 184.363 1 56.37 ? C1M U10 504 3P 1 HETATM 8 C C3M U10 . . . QA 14 177.871 226.758 182.06 1 56.37 ? C3M U10 504 3P 1 HETATM 9 C C4M U10 . . . QA 14 178.24 224.594 185.522 1 56.37 ? C4M U10 504 3P 1 HETATM 10 C C7 U10 . . . QA 14 173.767 228.451 187.034 1 56.37 ? C7 U10 504 3P 1 HETATM 11 C C8 U10 . . . QA 14 174.2 229.646 187.838 1 56.37 ? C8 U10 504 3P 1 HETATM 12 C C9 U10 . . . QA 14 173.575 230.809 187.938 1 56.37 ? C9 U10 504 3P 1 HETATM 13 C C10 U10 . . . QA 14 172.266 231.089 187.263 1 56.37 ? C10 U10 504 3P 1 HETATM 14 C C11 U10 . . . QA 14 174.154 231.955 188.72 1 56.37 ? C11 U10 504 3P 1 HETATM 15 C C12 U10 . . . QA 14 173.243 232.562 189.768 1 56.37 ? C12 U10 504 3P 1 HETATM 16 C C13 U10 . . . QA 14 172.941 231.645 190.913 1 56.37 ? C13 U10 504 3P 1 HETATM 17 C C14 U10 . . . QA 14 172.462 231.971 192.109 1 56.37 ? C14 U10 504 3P 1 HETATM 18 C C15 U10 . . . QA 14 172.17 230.973 193.19 1 56.37 ? C15 U10 504 3P 1 HETATM 19 C C16 U10 . . . QA 14 172.187 233.404 192.469 1 56.37 ? C16 U10 504 3P 1 HETATM 20 C C17 U10 . . . QA 14 173.024 233.907 193.629 1 56.37 ? C17 U10 504 3P 1 HETATM 21 C C18 U10 . . . QA 14 172.863 235.375 193.886 1 56.37 ? C18 U10 504 3P 1 HETATM 22 C C19 U10 . . . QA 14 172.439 235.975 194.995 1 56.37 ? C19 U10 504 3P 1 HETATM 23 C C20 U10 . . . QA 14 172.009 235.239 196.228 1 56.37 ? C20 U10 504 3P 1 HETATM 24 C C21 U10 . . . QA 14 172.371 237.473 195.091 1 56.37 ? C21 U10 504 3P 1 HETATM 25 O O2 U10 . . . QA 14 176.009 228.56 182.779 1 56.37 ? O2 U10 504 3P 1 HETATM 26 O O3 U10 . . . QA 14 177.698 226.297 183.404 1 56.37 ? O3 U10 504 3P 1 HETATM 27 O O4 U10 . . . QA 14 177.24 225.347 186.214 1 56.37 ? O4 U10 504 3P 1 HETATM 28 O O5 U10 . . . QA 14 175.594 226.425 187.553 1 56.37 ? O5 U10 504 3P 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 66 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 28 #