data_3L72 # _model_server_result.job_id avWEeamZsANjiMLzY5Tl-w _model_server_result.datetime_utc '2024-11-23 16:13:37' _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 3l72 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"X","auth_seq_id":2002}' # _entry.id 3L72 # _exptl.entry_id 3L72 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 863.343 _entity.id 13 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'Coenzyme Q10,(2Z,6E,10Z,14E,18E,22E,26Z)-isomer' _entity.pdbx_number_of_molecules 2 _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 3L72 _cell.length_a 172.614 _cell.length_b 181.548 _cell.length_c 241.033 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3L72 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details eicosameric _pdbx_struct_assembly.oligomeric_count 20 _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 _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 ? 13 X N N ? 13 MA 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 144 E CYS 144 1_555 E SG CYS 160 E CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 H SG CYS 23 H CYS 24 1_555 H SG CYS 67 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 H SG CYS 39 H CYS 40 1_555 H SG CYS 53 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 O SG CYS 144 R CYS 144 1_555 O SG CYS 160 R CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 R SG CYS 23 U CYS 24 1_555 R SG CYS 67 U CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf6 R SG CYS 39 U CYS 40 1_555 R SG CYS 53 U CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc1 C NE2 HIS 84 C HIS 84 1_555 U FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc2 C NE2 HIS 98 C HIS 98 1_555 V FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? metalc ? metalc3 C NE2 HIS 183 C HIS 183 1_555 U FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? metalc ? metalc4 C NE2 HIS 197 C HIS 197 1_555 V FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc5 D NE2 HIS 41 D HIS 41 1_555 CA FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? metalc ? metalc6 D SD MET 160 D MET 160 1_555 CA FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? metalc ? metalc7 E SG CYS 139 E CYS 139 1_555 GA FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc8 E ND1 HIS 141 E HIS 141 1_555 GA FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc9 E SG CYS 158 E CYS 158 1_555 GA FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc10 E ND1 HIS 161 E HIS 161 1_555 GA FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? metalc ? metalc11 M NE2 HIS 84 P HIS 84 1_555 IA FE HEM . P HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc12 M NE2 HIS 98 P HIS 98 1_555 JA FE HEM . P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? metalc ? metalc13 M NE2 HIS 183 P HIS 183 1_555 IA FE HEM . P HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? metalc ? metalc14 M NE2 HIS 197 P HIS 197 1_555 JA FE HEM . P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc15 N NE2 HIS 41 Q HIS 41 1_555 RA FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? metalc ? metalc16 N SD MET 160 Q MET 160 1_555 RA FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc17 O SG CYS 139 R CYS 139 1_555 VA FE1 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc18 O ND1 HIS 141 R HIS 141 1_555 VA FE2 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? metalc ? metalc19 O SG CYS 158 R CYS 158 1_555 VA FE1 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc20 O ND1 HIS 161 R HIS 161 1_555 VA FE2 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? # _chem_comp.formula 'C59 H90 O4' _chem_comp.formula_weight 863.343 _chem_comp.id UQ _chem_comp.mon_nstd_flag . _chem_comp.name 'Coenzyme Q10, (2Z,6E,10Z,14E,18E,22E,26Z)-isomer' _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 C1 C2 UQ sing 1018 n n C1 C6 UQ sing 1019 n n C1 O1 UQ doub 1020 n n C2 C3 UQ doub 1021 n n C2 O2 UQ sing 1022 n n C3 C4 UQ sing 1023 n n C3 O3 UQ sing 1024 n n C4 C5 UQ sing 1025 n n C4 O4 UQ doub 1026 n n C5 C6 UQ doub 1027 n n C5 CM5 UQ sing 1028 n n C6 C7 UQ sing 1029 n n CM5 HM51 UQ sing 1030 n n CM5 HM52 UQ sing 1031 n n CM5 HM53 UQ sing 1032 n n CM3 O3 UQ sing 1033 n n CM3 HM31 UQ sing 1034 n n CM3 HM32 UQ sing 1035 n n CM3 HM33 UQ sing 1036 n n CM2 O2 UQ sing 1037 n n CM2 HM21 UQ sing 1038 n n CM2 HM22 UQ sing 1039 n n CM2 HM23 UQ sing 1040 n n C7 C8 UQ sing 1041 n n C7 H71 UQ sing 1042 n n C7 H72 UQ sing 1043 n n C8 C9 UQ doub 1044 z n C8 H8 UQ sing 1045 n n C9 C10 UQ sing 1046 n n C9 C11 UQ sing 1047 n n C10 H101 UQ sing 1048 n n C10 H102 UQ sing 1049 n n C10 H103 UQ sing 1050 n n C11 C12 UQ sing 1051 n n C11 H111 UQ sing 1052 n n C11 H112 UQ sing 1053 n n C12 C13 UQ sing 1054 n n C12 H121 UQ sing 1055 n n C12 H122 UQ sing 1056 n n C13 C14 UQ doub 1057 n n C13 H13 UQ sing 1058 n n C14 C15 UQ sing 1059 n n C14 C16 UQ sing 1060 n n C15 H151 UQ sing 1061 n n C15 H152 UQ sing 1062 n n C15 H153 UQ sing 1063 n n C16 C17 UQ sing 1064 n n C16 H161 UQ sing 1065 n n C16 H162 UQ sing 1066 n n C17 C18 UQ sing 1067 n n C17 H171 UQ sing 1068 n n C17 H172 UQ sing 1069 n n C18 C19 UQ doub 1070 z n C18 H18 UQ sing 1071 n n C19 C20 UQ sing 1072 n n C19 C21 UQ sing 1073 n n C20 H201 UQ sing 1074 n n C20 H202 UQ sing 1075 n n C20 H203 UQ sing 1076 n n C21 C22 UQ sing 1077 n n C21 H211 UQ sing 1078 n n C21 H212 UQ sing 1079 n n C22 C23 UQ sing 1080 n n C22 H221 UQ sing 1081 n n C22 H222 UQ sing 1082 n n C23 C24 UQ doub 1083 e n C23 H23 UQ sing 1084 n n C24 C25 UQ sing 1085 n n C24 C26 UQ sing 1086 n n C25 H251 UQ sing 1087 n n C25 H252 UQ sing 1088 n n C25 H253 UQ sing 1089 n n C26 C27 UQ sing 1090 n n C26 H261 UQ sing 1091 n n C26 H262 UQ sing 1092 n n C27 C28 UQ sing 1093 n n C27 H271 UQ sing 1094 n n C27 H272 UQ sing 1095 n n C28 C29 UQ doub 1096 e n C28 H28 UQ sing 1097 n n C29 C30 UQ sing 1098 n n C29 C31 UQ sing 1099 n n C30 H301 UQ sing 1100 n n C30 H302 UQ sing 1101 n n C30 H303 UQ sing 1102 n n C31 C32 UQ sing 1103 n n C31 H311 UQ sing 1104 n n C31 H312 UQ sing 1105 n n C32 C33 UQ sing 1106 n n C32 H321 UQ sing 1107 n n C32 H322 UQ sing 1108 n n C33 C34 UQ doub 1109 e n C33 H33 UQ sing 1110 n n C34 C35 UQ sing 1111 n n C34 C36 UQ sing 1112 n n C35 H351 UQ sing 1113 n n C35 H352 UQ sing 1114 n n C35 H353 UQ sing 1115 n n C36 C37 UQ sing 1116 n n C36 H361 UQ sing 1117 n n C36 H362 UQ sing 1118 n n C37 C38 UQ sing 1119 n n C37 H371 UQ sing 1120 n n C37 H372 UQ sing 1121 n n C38 C39 UQ doub 1122 z n C38 H38 UQ sing 1123 n n C39 C40 UQ sing 1124 n n C39 C41 UQ sing 1125 n n C40 H401 UQ sing 1126 n n C40 H402 UQ sing 1127 n n C40 H403 UQ sing 1128 n n C41 C42 UQ sing 1129 n n C41 H411 UQ sing 1130 n n C41 H412 UQ sing 1131 n n C42 C43 UQ sing 1132 n n C42 H421 UQ sing 1133 n n C42 H422 UQ sing 1134 n n C43 C44 UQ doub 1135 n n C43 H43 UQ sing 1136 n n C44 C45 UQ sing 1137 n n C44 C46 UQ sing 1138 n n C45 H451 UQ sing 1139 n n C45 H452 UQ sing 1140 n n C45 H453 UQ sing 1141 n n C46 C47 UQ sing 1142 n n C46 H461 UQ sing 1143 n n C46 H462 UQ sing 1144 n n C47 C48 UQ sing 1145 n n C47 H471 UQ sing 1146 n n C47 H472 UQ sing 1147 n n C48 C49 UQ doub 1148 n n C48 H48 UQ sing 1149 n n C49 C50 UQ sing 1150 n n C49 C51 UQ sing 1151 n n C50 H501 UQ sing 1152 n n C50 H502 UQ sing 1153 n n C50 H503 UQ sing 1154 n n C51 C52 UQ sing 1155 n n C51 H511 UQ sing 1156 n n C51 H512 UQ sing 1157 n n C52 C53 UQ sing 1158 n n C52 H521 UQ sing 1159 n n C52 H522 UQ sing 1160 n n C53 C54 UQ doub 1161 n n C53 H53 UQ sing 1162 n n C54 C55 UQ sing 1163 n n C54 C56 UQ sing 1164 n n C55 H551 UQ sing 1165 n n C55 H552 UQ sing 1166 n n C55 H553 UQ sing 1167 n n C56 H561 UQ sing 1168 n n C56 H562 UQ sing 1169 n n C56 H563 UQ sing 1170 n n # _atom_sites.entry_id 3L72 _atom_sites.fract_transf_matrix[1][1] 0.005793 _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] 0.005508 _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] 0.004149 _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 U 11 HEM C 1 501 501 HEM HEM . V 11 HEM C 1 502 502 HEM HEM . W 12 IKR C 1 2001 2001 IKR IKR . X 13 UQ C 1 2002 2002 UQ UQ . Y 14 CDL C 1 2004 2004 CDL CDL . Z 15 PEE C 1 2007 2007 PEE PEE . AA 15 PEE C 1 2008 2008 PEE PEE . BA 16 GOL C 1 2011 2011 GOL GOL . CA 17 HEC D 1 501 501 HEC HEC . DA 14 CDL D 1 2003 2003 CDL CDL . EA 18 BOG D 1 2009 2009 BOG BOG . FA 18 BOG D 1 2091 2091 BOG BOG . GA 19 FES E 1 501 501 FES FES . HA 15 PEE E 1 2005 2005 PEE PEE . IA 11 HEM P 1 501 501 HEM HEM . JA 11 HEM P 1 502 502 HEM HEM . KA 18 BOG P 1 2010 2010 BOG BOG . LA 12 IKR P 1 3001 3001 IKR IKR . MA 13 UQ P 1 3002 3002 UQ UQ . NA 14 CDL P 1 3004 3004 CDL CDL . OA 15 PEE P 1 3007 3007 PEE PEE . PA 15 PEE P 1 3008 3008 PEE PEE . QA 16 GOL P 1 3011 3011 GOL GOL . RA 17 HEC Q 1 501 501 HEC HEC . SA 14 CDL Q 1 3003 3003 CDL CDL . TA 18 BOG Q 1 3009 3009 BOG BOG . UA 18 BOG Q 1 3091 3091 BOG BOG . VA 19 FES R 1 501 501 FES FES . WA 15 PEE R 1 3005 3005 PEE PEE . XA 20 HOH C 1 381 2 HOH HOH . XA 20 HOH C 2 382 4 HOH HOH . XA 20 HOH C 3 383 108 HOH HOH . XA 20 HOH C 4 384 119 HOH HOH . XA 20 HOH C 5 385 168 HOH HOH . XA 20 HOH C 6 386 222 HOH HOH . XA 20 HOH C 7 1008 1008 HOH HOH . XA 20 HOH C 8 1238 1238 HOH HOH . YA 20 HOH E 1 1289 1289 HOH HOH . ZA 20 HOH P 1 381 1 HOH HOH . ZA 20 HOH P 2 382 6 HOH HOH . ZA 20 HOH P 3 383 28 HOH HOH . ZA 20 HOH P 4 384 35 HOH HOH . ZA 20 HOH P 5 385 109 HOH HOH . ZA 20 HOH P 6 386 214 HOH HOH . ZA 20 HOH P 7 959 959 HOH HOH . ZA 20 HOH P 8 1239 1239 HOH HOH . AB 20 HOH R 1 1230 1230 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 UQ . . . X 13 28.498 111.035 71.331 1 90.03 ? C1 UQ 2002 C 1 HETATM 2 C C2 UQ . . . X 13 28.149 109.555 71.709 1 90.64 ? C2 UQ 2002 C 1 HETATM 3 C C3 UQ . . . X 13 28.673 108.965 72.882 1 90.63 ? C3 UQ 2002 C 1 HETATM 4 C C4 UQ . . . X 13 29.636 109.796 73.803 1 89.54 ? C4 UQ 2002 C 1 HETATM 5 C C5 UQ . . . X 13 29.994 111.265 73.436 1 88.25 ? C5 UQ 2002 C 1 HETATM 6 C C6 UQ . . . X 13 29.463 111.868 72.253 1 88.37 ? C6 UQ 2002 C 1 HETATM 7 C CM5 UQ . . . X 13 30.961 111.981 74.418 1 88.12 ? CM5 UQ 2002 C 1 HETATM 8 C CM3 UQ . . . X 13 29.2 106.519 72.724 1 89.1 ? CM3 UQ 2002 C 1 HETATM 9 C CM2 UQ . . . X 13 27.872 108.289 69.63 1 89.62 ? CM2 UQ 2002 C 1 HETATM 10 C C7 UQ . . . X 13 29.743 113.352 71.743 1 87.48 ? C7 UQ 2002 C 1 HETATM 11 C C8 UQ . . . X 13 30.263 114.487 72.647 1 86.41 ? C8 UQ 2002 C 1 HETATM 12 C C9 UQ . . . X 13 31.046 115.539 72.247 1 87.16 ? C9 UQ 2002 C 1 HETATM 13 C C10 UQ . . . X 13 31.459 115.613 70.769 1 89.29 ? C10 UQ 2002 C 1 HETATM 14 C C11 UQ . . . X 13 31.562 116.68 73.155 1 87.64 ? C11 UQ 2002 C 1 HETATM 15 C C12 UQ . . . X 13 31.729 118.096 72.5 1 85.7 ? C12 UQ 2002 C 1 HETATM 16 O O2 UQ . . . X 13 27.27 108.823 70.844 1 90.28 ? O2 UQ 2002 C 1 HETATM 17 O O3 UQ . . . X 13 28.353 107.592 73.248 1 90.77 ? O3 UQ 2002 C 1 HETATM 18 O O4 UQ . . . X 13 30.106 109.287 74.836 1 89.65 ? O4 UQ 2002 C 1 HETATM 19 O O1 UQ . . . X 13 28.014 111.538 70.277 1 90.8 ? O1 UQ 2002 C 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 42 _model_server_stats.create_model_time_ms 43 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 19 #