data_7YML # _model_server_result.job_id TBpT6Uo1NMyjwCt8bVJYnQ _model_server_result.datetime_utc '2025-02-26 08:12:36' _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 7yml # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"BA","auth_seq_id":304}' # _entry.id 7YML # _exptl.entry_id 7YML _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 863.343 _entity.id 9 _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 7YML _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YML _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 24-meric _pdbx_struct_assembly.oligomeric_count 24 _pdbx_struct_assembly.details author_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,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB,SB,TB,UB,VB,WB,XB,YB,ZB,AC,BC,CC,DC,EC,FC,GC,HC,IC,JC,KC,LC,MC,NC,OC,PC,QC,RC,SC,TC,UC,VC,WC,XC,YC,ZC,AD,BD,CD,DD,ED,FD,GD,HD,ID,JD,KD _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 ? 9 AA N N ? 9 BA N N ? 9 JA N N ? 9 PA 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 covale ? covale1 D C FME 1 A FME 1 1_555 D N SER 2 A SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale2 F C FME 1 D FME 1 1_555 F N SER 2 D SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale3 H C FME 1 F FME 1 1_555 H N SER 2 F SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 J C FME 1 I FME 1 1_555 J N SER 2 I SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale5 L C FME 1 K FME 1 1_555 L N SER 2 K SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale6 N C FME 1 O FME 1 1_555 N N SER 2 O SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale7 P C FME 1 Q FME 1 1_555 P N SER 2 Q SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale8 R C FME 1 S FME 1 1_555 R N SER 2 S SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale9 T C FME 1 V FME 1 1_555 T N SER 2 V SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 A NE2 HIS 191 L HIS 191 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? metalc ? metalc2 A NE2 HIS 231 L HIS 231 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc3 B NE2 HIS 218 M HIS 218 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc4 B OE1 GLU 233 M GLU 233 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc5 B OE2 GLU 233 M GLU 233 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc6 B NE2 HIS 265 M HIS 265 1_555 OA FE FE . M FE 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.242 ? metalc ? metalc7 RB MG BCL . F BCL 101 1_555 SB O1 MYR . F MYR 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.654 ? # _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' # _atom_sites.entry_id 7YML _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 Y 7 BCL L 1 301 301 BCL BCL . Z 8 BPH L 1 302 302 BPH BPH . AA 9 U10 L 1 303 310 U10 U10 . BA 9 U10 L 1 304 312 U10 U10 . CA 10 PGV L 1 305 316 PGV PGV . DA 11 PEE L 1 306 317 PEE PEE . EA 12 LDA L 1 307 318 LDA LDA . FA 13 LMT L 1 308 319 LMT LMT . GA 13 LMT L 1 309 320 LMT LMT . HA 7 BCL L 1 310 401 BCL BCL . IA 13 LMT L 1 311 307 LMT LMT . JA 9 U10 M 1 401 311 U10 U10 . KA 10 PGV M 1 402 315 PGV PGV . LA 7 BCL M 1 403 402 BCL BCL . MA 7 BCL M 1 404 403 BCL BCL . NA 8 BPH M 1 405 404 BPH BPH . OA 14 FE M 1 406 410 FE FE . PA 9 U10 M 1 407 411 U10 U10 . QA 15 SPO M 1 408 412 SPO SPO . RA 13 LMT M 1 409 418 LMT LMT . SA 13 LMT M 1 410 420 LMT LMT . TA 13 LMT M 1 411 422 LMT LMT . UA 13 LMT M 1 412 423 LMT LMT . VA 10 PGV M 1 413 424 PGV PGV . WA 10 PGV M 1 414 425 PGV PGV . XA 10 PGV M 1 415 426 PGV PGV . YA 12 LDA M 1 416 428 LDA LDA . ZA 13 LMT M 1 417 429 LMT LMT . AB 12 LDA M 1 418 430 LDA LDA . BB 12 LDA M 1 419 431 LDA LDA . CB 12 LDA M 1 420 433 LDA LDA . DB 12 LDA H 1 301 413 LDA LDA . EB 12 LDA H 1 302 416 LDA LDA . FB 10 PGV H 1 303 305 PGV PGV . GB 10 PGV H 1 304 306 PGV PGV . HB 7 BCL A 1 101 101 BCL BCL . IB 13 LMT A 1 102 201 LMT LMT . JB 7 BCL B 1 101 101 BCL BCL . KB 15 SPO D 1 101 110 SPO SPO . LB 7 BCL D 1 102 101 BCL BCL . MB 15 SPO D 1 103 110 SPO SPO . NB 12 LDA D 1 104 112 LDA LDA . OB 15 SPO D 1 105 110 SPO SPO . PB 15 SPO E 1 101 111 SPO SPO . QB 7 BCL E 1 102 101 BCL BCL . RB 7 BCL F 1 101 310 BCL BCL . SB 16 MYR F 1 102 311 MYR MYR . TB 7 BCL F 1 103 101 BCL BCL . UB 15 SPO F 1 104 111 SPO SPO . VB 7 BCL G 1 101 101 BCL BCL . WB 15 SPO G 1 102 111 SPO SPO . XB 13 LMT I 1 101 314 LMT LMT . YB 7 BCL I 1 102 101 BCL BCL . ZB 15 SPO I 1 103 110 SPO SPO . AC 15 SPO I 1 104 110 SPO SPO . BC 7 BCL J 1 101 101 BCL BCL . CC 13 LMT K 1 101 302 LMT LMT . DC 7 BCL K 1 102 101 BCL BCL . EC 15 SPO N 1 101 111 SPO SPO . FC 7 BCL N 1 102 101 BCL BCL . GC 12 LDA O 1 101 435 LDA LDA . HC 7 BCL O 1 102 101 BCL BCL . IC 15 SPO O 1 103 110 SPO SPO . JC 15 SPO O 1 104 110 SPO SPO . KC 15 SPO P 1 101 111 SPO SPO . LC 7 BCL P 1 102 101 BCL BCL . MC 13 LMT Q 1 101 414 LMT LMT . NC 12 LDA Q 1 102 417 LDA LDA . OC 10 PGV Q 1 103 427 PGV PGV . PC 12 LDA Q 1 104 434 LDA LDA . QC 7 BCL Q 1 105 101 BCL BCL . RC 15 SPO R 1 101 111 SPO SPO . SC 7 BCL R 1 102 101 BCL BCL . TC 13 LMT S 1 101 415 LMT LMT . UC 13 LMT S 1 102 419 LMT LMT . VC 7 BCL S 1 103 101 BCL BCL . WC 15 SPO S 1 104 110 SPO SPO . XC 15 SPO S 1 105 110 SPO SPO . YC 15 SPO T 1 101 111 SPO SPO . ZC 7 BCL T 1 102 101 BCL BCL . AD 7 BCL V 1 101 101 BCL BCL . BD 15 SPO W 1 101 111 SPO SPO . CD 7 BCL W 1 102 101 BCL BCL . DD 13 LMT Y 1 101 421 LMT LMT . ED 7 BCL Y 1 102 101 BCL BCL . FD 13 LMT Y 1 103 432 LMT LMT . GD 7 BCL Z 1 101 101 BCL BCL . HD 13 LMT X 1 101 321 LMT LMT . ID 13 LMT X 1 102 301 LMT LMT . JD 17 HOH L 1 401 1 HOH HOH . JD 17 HOH L 2 402 3 HOH HOH . JD 17 HOH L 3 403 4 HOH HOH . JD 17 HOH L 4 404 2 HOH HOH . KD 17 HOH M 1 501 6 HOH HOH . KD 17 HOH M 2 502 5 HOH HOH . KD 17 HOH M 3 503 7 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 . . . BA 9 186.447 155.241 194.256 1 68.05 ? C1 U10 304 L 1 HETATM 2 C C2 U10 . . . BA 9 186.16 155.906 195.517 1 70.04 ? C2 U10 304 L 1 HETATM 3 C C3 U10 . . . BA 9 185.725 155.171 196.635 1 70.64 ? C3 U10 304 L 1 HETATM 4 C C4 U10 . . . BA 9 185.684 153.761 196.523 1 70.14 ? C4 U10 304 L 1 HETATM 5 C C5 U10 . . . BA 9 185.68 153.181 195.233 1 68.63 ? C5 U10 304 L 1 HETATM 6 C C6 U10 . . . BA 9 186.212 153.895 194.132 1 70.85 ? C6 U10 304 L 1 HETATM 7 C C1M U10 . . . BA 9 187 156.065 193.143 1 64.12 ? C1M U10 304 L 1 HETATM 8 C C3M U10 . . . BA 9 184.876 155.348 198.847 1 65.11 ? C3M U10 304 L 1 HETATM 9 C C4M U10 . . . BA 9 186.721 151.984 197.647 1 65.21 ? C4M U10 304 L 1 HETATM 10 C C7 U10 . . . BA 9 186.546 153.148 192.859 1 64.58 ? C7 U10 304 L 1 HETATM 11 C C8 U10 . . . BA 9 185.618 153.41 191.704 1 64.81 ? C8 U10 304 L 1 HETATM 12 C C9 U10 . . . BA 9 184.333 153.112 191.585 1 72.75 ? C9 U10 304 L 1 HETATM 13 C C10 U10 . . . BA 9 183.472 152.599 192.701 1 67.97 ? C10 U10 304 L 1 HETATM 14 C C11 U10 . . . BA 9 183.641 153.263 190.262 1 68.43 ? C11 U10 304 L 1 HETATM 15 C C12 U10 . . . BA 9 184.363 152.536 189.149 1 62.89 ? C12 U10 304 L 1 HETATM 16 C C13 U10 . . . BA 9 183.899 151.135 188.892 1 65.03 ? C13 U10 304 L 1 HETATM 17 C C14 U10 . . . BA 9 184.274 150.005 189.484 1 67.43 ? C14 U10 304 L 1 HETATM 18 C C15 U10 . . . BA 9 184.882 149.927 190.849 1 63.77 ? C15 U10 304 L 1 HETATM 19 C C16 U10 . . . BA 9 184.186 148.695 188.759 1 64.56 ? C16 U10 304 L 1 HETATM 20 C C17 U10 . . . BA 9 185.158 148.665 187.606 1 61.12 ? C17 U10 304 L 1 HETATM 21 C C18 U10 . . . BA 9 185.149 147.368 186.865 1 61.87 ? C18 U10 304 L 1 HETATM 22 C C19 U10 . . . BA 9 186.147 146.502 186.735 1 65.15 ? C19 U10 304 L 1 HETATM 23 C C20 U10 . . . BA 9 187.471 146.659 187.417 1 65.48 ? C20 U10 304 L 1 HETATM 24 C C21 U10 . . . BA 9 186.005 145.279 185.874 1 65.56 ? C21 U10 304 L 1 HETATM 25 C C22 U10 . . . BA 9 184.62 145.14 185.283 1 65.03 ? C22 U10 304 L 1 HETATM 26 C C23 U10 . . . BA 9 184.469 143.955 184.378 1 65.81 ? C23 U10 304 L 1 HETATM 27 C C24 U10 . . . BA 9 183.656 142.908 184.496 1 69.32 ? C24 U10 304 L 1 HETATM 28 C C25 U10 . . . BA 9 183.575 141.811 183.478 1 64.67 ? C25 U10 304 L 1 HETATM 29 C C26 U10 . . . BA 9 182.752 142.732 185.685 1 68.28 ? C26 U10 304 L 1 HETATM 30 C C27 U10 . . . BA 9 181.614 143.73 185.82 1 65.38 ? C27 U10 304 L 1 HETATM 31 C C28 U10 . . . BA 9 180.558 143.63 184.765 1 64.16 ? C28 U10 304 L 1 HETATM 32 C C29 U10 . . . BA 9 179.508 144.427 184.596 1 67.72 ? C29 U10 304 L 1 HETATM 33 C C30 U10 . . . BA 9 179.358 145.753 185.277 1 65.23 ? C30 U10 304 L 1 HETATM 34 C C31 U10 . . . BA 9 178.342 144.014 183.743 1 63.77 ? C31 U10 304 L 1 HETATM 35 C C32 U10 . . . BA 9 178.447 142.588 183.252 1 63.44 ? C32 U10 304 L 1 HETATM 36 C C33 U10 . . . BA 9 177.145 142.061 182.74 1 64.7 ? C33 U10 304 L 1 HETATM 37 C C34 U10 . . . BA 9 176.869 141.598 181.525 1 70.8 ? C34 U10 304 L 1 HETATM 38 C C35 U10 . . . BA 9 175.522 141.079 181.122 1 68.01 ? C35 U10 304 L 1 HETATM 39 C C36 U10 . . . BA 9 177.919 141.574 180.45 1 64.53 ? C36 U10 304 L 1 HETATM 40 C C37 U10 . . . BA 9 177.431 141.037 179.119 1 60.69 ? C37 U10 304 L 1 HETATM 41 C C38 U10 . . . BA 9 178.425 141.225 178.015 1 66.63 ? C38 U10 304 L 1 HETATM 42 C C39 U10 . . . BA 9 179.562 140.571 177.806 1 67.08 ? C39 U10 304 L 1 HETATM 43 C C40 U10 . . . BA 9 180.004 139.403 178.632 1 59.84 ? C40 U10 304 L 1 HETATM 44 C C41 U10 . . . BA 9 180.494 140.978 176.697 1 65.66 ? C41 U10 304 L 1 HETATM 45 C C42 U10 . . . BA 9 181.618 140.017 176.352 1 65.18 ? C42 U10 304 L 1 HETATM 46 C C43 U10 . . . BA 9 182.842 140.113 177.208 1 66.06 ? C43 U10 304 L 1 HETATM 47 C C44 U10 . . . BA 9 183.906 139.318 177.197 1 65.34 ? C44 U10 304 L 1 HETATM 48 C C45 U10 . . . BA 9 183.999 138.066 176.381 1 63.15 ? C45 U10 304 L 1 HETATM 49 C C46 U10 . . . BA 9 185.123 139.64 178.012 1 63.6 ? C46 U10 304 L 1 HETATM 50 C C47 U10 . . . BA 9 185.665 141.02 177.713 1 61.36 ? C47 U10 304 L 1 HETATM 51 C C48 U10 . . . BA 9 186.959 141.278 178.413 1 64.34 ? C48 U10 304 L 1 HETATM 52 C C49 U10 . . . BA 9 187.223 142.185 179.347 1 67.23 ? C49 U10 304 L 1 HETATM 53 C C50 U10 . . . BA 9 188.549 142.294 180.035 1 66.93 ? C50 U10 304 L 1 HETATM 54 C C51 U10 . . . BA 9 186.194 143.195 179.772 1 63.28 ? C51 U10 304 L 1 HETATM 55 C C52 U10 . . . BA 9 186.612 143.977 181 1 66.11 ? C52 U10 304 L 1 HETATM 56 C C53 U10 . . . BA 9 185.663 145.061 181.403 1 67.42 ? C53 U10 304 L 1 HETATM 57 C C54 U10 . . . BA 9 185.941 146.314 181.729 1 69.28 ? C54 U10 304 L 1 HETATM 58 C C55 U10 . . . BA 9 184.881 147.309 182.085 1 66.31 ? C55 U10 304 L 1 HETATM 59 C C56 U10 . . . BA 9 187.34 146.848 181.778 1 62.48 ? C56 U10 304 L 1 HETATM 60 O O2 U10 . . . BA 9 186.308 157.113 195.636 1 68.91 ? O2 U10 304 L 1 HETATM 61 O O3 U10 . . . BA 9 185.468 155.972 197.707 1 67.54 ? O3 U10 304 L 1 HETATM 62 O O4 U10 . . . BA 9 185.616 152.884 197.558 1 72.38 ? O4 U10 304 L 1 HETATM 63 O O5 U10 . . . BA 9 185.27 152.038 195.094 1 63.19 ? O5 U10 304 L 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 38 _model_server_stats.create_model_time_ms 120 _model_server_stats.query_time_ms 1548 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 63 #