data_8XNU # _model_server_result.job_id -_iixHCwAfVFgZ5Q0w7E2A _model_server_result.datetime_utc '2025-06-22 16:52:58' _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 8xnu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"FA","auth_seq_id":400}' # _entry.id 8XNU # _exptl.entry_id 8XNU _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 795.226 _entity.id 28 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description Ubiquinone-9 _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 23-meric _pdbx_struct_assembly.oligomeric_count 23 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 28 _struct_asym.id FA _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 disulf ? disulf1 M SG CYS 24 S CYS 24 1_555 M SG CYS 58 S CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 Q SG CYS 46 X CYS 46 1_555 Q SG CYS 56 X CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 Q SG CYS 88 X CYS 88 1_555 Q SG CYS 100 X CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? metalc ? metalc1 B SG CYS 99 B CYS 99 1_555 Y FE1 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc2 B SG CYS 194 B CYS 194 1_555 Y FE3 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.967 ? metalc ? metalc3 E SG CYS 134 E CYS 134 1_555 Z FE1 FES . E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? metalc ? metalc4 E SG CYS 175 E CYS 175 1_555 Z FE2 FES . E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.66 ? metalc ? metalc5 F SG CYS 385 F CYS 385 1_555 BA FE2 SF4 . F SF4 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? metalc ? metalc6 G O PHE 63 G PHE 63 1_555 EA FE1 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? metalc ? metalc7 G SG CYS 75 G CYS 75 1_555 EA FE1 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc8 G NE2 HIS 124 G HIS 124 1_555 CA FE1 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.961 ? metalc ? metalc9 G SG CYS 128 G CYS 128 1_555 CA FE3 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc10 G SG CYS 137 G CYS 137 1_555 CA FE4 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.366 ? metalc ? metalc11 G SG CYS 182 G CYS 182 1_555 DA FE2 SF4 . G SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? metalc ? metalc12 I SG CYS 116 I CYS 116 1_555 IA FE1 SF4 . I SF4 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc13 I SG CYS 119 I CYS 119 1_555 IA FE2 SF4 . I SF4 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc14 I SG CYS 158 I CYS 158 1_555 HA FE3 SF4 . I SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? metalc ? metalc15 L SG CYS 79 R CYS 79 1_555 KA ZN ZN . R ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? metalc ? metalc16 L NE2 HIS 88 R HIS 88 1_555 KA ZN ZN . R ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.985 ? metalc ? metalc17 L SG CYS 104 R CYS 104 1_555 KA ZN ZN . R ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc18 L SG CYS 107 R CYS 107 1_555 KA ZN ZN . R ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? # _chem_comp.formula 'C54 H82 O4' _chem_comp.formula_weight 795.226 _chem_comp.id UQ9 _chem_comp.mon_nstd_flag . _chem_comp.name Ubiquinone-9 _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '2,3-dimethoxy-5-methyl-6-[(2E,6E,10E,14Z,18E,22E,26E,30Z)-3,7,11,15,19,23,27,31,35-nonamethylhexatriaconta-2,6,10,14,18 ,22,26,30,34-nonaen-1-yl]cyclohexa-2,5-diene-1,4-dione' # 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 C51 C49 UQ9 sing 726 n n C51 H51 UQ9 sing 727 n n C51 H51A UQ9 sing 728 n n C51 H51B UQ9 sing 729 n n C49 C50 UQ9 sing 730 n n C49 C48 UQ9 doub 731 n n C50 H50 UQ9 sing 732 n n C50 H50A UQ9 sing 733 n n C50 H50B UQ9 sing 734 n n C48 C47 UQ9 sing 735 n n C48 H48 UQ9 sing 736 n n C47 C46 UQ9 sing 737 n n C47 H47 UQ9 sing 738 n n C47 H47A UQ9 sing 739 n n C46 C44 UQ9 sing 740 n n C46 H46 UQ9 sing 741 n n C46 H46A UQ9 sing 742 n n C44 C43 UQ9 doub 743 z n C44 C45 UQ9 sing 744 n n C45 H45 UQ9 sing 745 n n C45 H45A UQ9 sing 746 n n C45 H45B UQ9 sing 747 n n C42 C43 UQ9 sing 748 n n C43 H43 UQ9 sing 749 n n C42 C41 UQ9 sing 750 n n C42 H42 UQ9 sing 751 n n C42 H42A UQ9 sing 752 n n C41 C39 UQ9 sing 753 n n C41 H41 UQ9 sing 754 n n C41 H41A UQ9 sing 755 n n C40 C39 UQ9 sing 756 e n C39 C38 UQ9 doub 757 n n C40 H40 UQ9 sing 758 n n C40 H40A UQ9 sing 759 n n C40 H40B UQ9 sing 760 n n C38 C37 UQ9 sing 761 n n C38 H38 UQ9 sing 762 n n C37 C36 UQ9 sing 763 n n C37 H37 UQ9 sing 764 n n C37 H37A UQ9 sing 765 n n C34 C36 UQ9 sing 766 n n C36 H36 UQ9 sing 767 n n C36 H36A UQ9 sing 768 n n C33 C34 UQ9 doub 769 n n C34 C35 UQ9 sing 770 n n C35 H35 UQ9 sing 771 n n C35 H35A UQ9 sing 772 n n C35 H35B UQ9 sing 773 e n C32 C33 UQ9 sing 774 n n C33 H33 UQ9 sing 775 n n C32 C31 UQ9 sing 776 n n C32 H32 UQ9 sing 777 n n C32 H32A UQ9 sing 778 n n C29 C31 UQ9 sing 779 n n C31 H31 UQ9 sing 780 n n C31 H31A UQ9 sing 781 n n C30 C29 UQ9 sing 782 e n C29 C28 UQ9 doub 783 n n C30 H30 UQ9 sing 784 n n C30 H30A UQ9 sing 785 n n C30 H30B UQ9 sing 786 n n C27 C28 UQ9 sing 787 n n C28 H28 UQ9 sing 788 n n C27 C26 UQ9 sing 789 n n C27 H27 UQ9 sing 790 n n C27 H27A UQ9 sing 791 n n C24 C26 UQ9 sing 792 n n C26 H26 UQ9 sing 793 n n C26 H26A UQ9 sing 794 n n C23 C24 UQ9 doub 795 n n C24 C25 UQ9 sing 796 n n C25 H25 UQ9 sing 797 n n C25 H25A UQ9 sing 798 n n C25 H25B UQ9 sing 799 z n C22 C23 UQ9 sing 800 n n C23 H23 UQ9 sing 801 n n C21 C22 UQ9 sing 802 n n C22 H22 UQ9 sing 803 n n C22 H22A UQ9 sing 804 n n C19 C21 UQ9 sing 805 n n C21 H21 UQ9 sing 806 n n C21 H21A UQ9 sing 807 n n C20 C19 UQ9 sing 808 e n C19 C18 UQ9 doub 809 n n C20 H20 UQ9 sing 810 n n C20 H20A UQ9 sing 811 n n C20 H20B UQ9 sing 812 n n C17 C18 UQ9 sing 813 n n C18 H18 UQ9 sing 814 n n C17 C16 UQ9 sing 815 n n C17 H17 UQ9 sing 816 n n C17 H17A UQ9 sing 817 n n C14 C16 UQ9 sing 818 n n C16 H16 UQ9 sing 819 n n C16 H16A UQ9 sing 820 n n C13 C14 UQ9 doub 821 n n C14 C15 UQ9 sing 822 n n C15 H15 UQ9 sing 823 n n C15 H15A UQ9 sing 824 n n C15 H15B UQ9 sing 825 e n C12 C13 UQ9 sing 826 n n C13 H13 UQ9 sing 827 n n C11 C12 UQ9 sing 828 n n C12 H12 UQ9 sing 829 n n C12 H12A UQ9 sing 830 n n C11 C9 UQ9 sing 831 n n C11 H11 UQ9 sing 832 n n C11 H11A UQ9 sing 833 n n C10 C9 UQ9 sing 834 e n C9 C8 UQ9 doub 835 n n C10 H10 UQ9 sing 836 n n C10 H10A UQ9 sing 837 n n C10 H10B UQ9 sing 838 n n C8 C7 UQ9 sing 839 n n C8 H8 UQ9 sing 840 n n C7 C6 UQ9 sing 841 n n C7 H7 UQ9 sing 842 n n C7 H7A UQ9 sing 843 n n C5 C6 UQ9 sing 844 n n C6 C1 UQ9 doub 845 n n C1 C2 UQ9 sing 846 n n C1 C1M UQ9 sing 847 n n C1M H1M UQ9 sing 848 n n C1M H1MA UQ9 sing 849 n n C1M H1MB UQ9 sing 850 n n C3 C2 UQ9 sing 851 n n C2 O2 UQ9 doub 852 n n C4 C3 UQ9 doub 853 n n C3 O3 UQ9 sing 854 n n O3 C3M UQ9 sing 855 n n C3M H3M UQ9 sing 856 n n C3M H3MA UQ9 sing 857 n n C3M H3MB UQ9 sing 858 n n O4 C4 UQ9 sing 859 n n C5 C4 UQ9 sing 860 n n O4 C4M UQ9 sing 861 n n C4M H4M UQ9 sing 862 n n C4M H4MA UQ9 sing 863 n n C4M H4MB UQ9 sing 864 n n O5 C5 UQ9 doub 865 n n # _atom_sites.entry_id 8XNU _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 X 24 3PE A 1 401 401 3PE 3PE . Y 25 SF4 B 1 301 236 SF4 SF4 . Z 26 FES E 1 301 332 FES FES . AA 27 FMN F 1 501 521 FMN FMN . BA 25 SF4 F 1 502 522 SF4 SF4 . CA 25 SF4 G 1 801 824 SF4 SF4 . DA 25 SF4 G 1 802 825 SF4 SF4 . EA 26 FES G 1 803 826 FES FES . FA 28 UQ9 H 1 400 400 UQ9 UQ9 . GA 24 3PE I 1 301 403 3PE 3PE . HA 25 SF4 I 1 302 235 SF4 SF4 . IA 25 SF4 I 1 303 236 SF4 SF4 . JA 29 NDP P 1 401 536 NDP NDP . KA 30 ZN R 1 201 221 ZN ZN . LA 31 EHZ W 1 201 201 EHZ EHZ . # 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 C28 UQ9 . . . FA 28 259.985 185.211 168.287 1 31.4 0 C28 UQ9 400 H 1 HETATM 2 C C27 UQ9 . . . FA 28 260.534 186.253 169.212 1 31.4 0 C27 UQ9 400 H 1 HETATM 3 C C26 UQ9 . . . FA 28 261.209 185.657 170.427 1 31.4 0 C26 UQ9 400 H 1 HETATM 4 C C24 UQ9 . . . FA 28 260.882 186.398 171.693 1 31.4 0 C24 UQ9 400 H 1 HETATM 5 C C25 UQ9 . . . FA 28 259.537 186.096 172.276 1 31.4 0 C25 UQ9 400 H 1 HETATM 6 C C23 UQ9 . . . FA 28 261.741 187.263 172.223 1 31.4 0 C23 UQ9 400 H 1 HETATM 7 C C22 UQ9 . . . FA 28 261.554 188.734 172.426 1 31.4 0 C22 UQ9 400 H 1 HETATM 8 C C21 UQ9 . . . FA 28 262.192 189.221 173.707 1 31.4 0 C21 UQ9 400 H 1 HETATM 9 C C19 UQ9 . . . FA 28 261.205 189.439 174.817 1 31.4 0 C19 UQ9 400 H 1 HETATM 10 C C20 UQ9 . . . FA 28 259.975 188.587 174.76 1 31.4 0 C20 UQ9 400 H 1 HETATM 11 C C18 UQ9 . . . FA 28 261.437 190.328 175.776 1 31.4 0 C18 UQ9 400 H 1 HETATM 12 C C17 UQ9 . . . FA 28 262.116 190.102 177.087 1 31.4 0 C17 UQ9 400 H 1 HETATM 13 C C16 UQ9 . . . FA 28 262.042 191.306 177.987 1 31.4 0 C16 UQ9 400 H 1 HETATM 14 C C14 UQ9 . . . FA 28 263.286 192.146 177.932 1 31.4 0 C14 UQ9 400 H 1 HETATM 15 C C15 UQ9 . . . FA 28 264.239 191.806 176.826 1 31.4 0 C15 UQ9 400 H 1 HETATM 16 C C13 UQ9 . . . FA 28 263.493 193.119 178.812 1 31.4 0 C13 UQ9 400 H 1 HETATM 17 C C12 UQ9 . . . FA 28 264.717 193.385 179.625 1 31.4 0 C12 UQ9 400 H 1 HETATM 18 C C11 UQ9 . . . FA 28 265.655 194.382 178.989 1 31.4 0 C11 UQ9 400 H 1 HETATM 19 C C9 UQ9 . . . FA 28 266.417 195.149 180.029 1 31.4 0 C9 UQ9 400 H 1 HETATM 20 C C10 UQ9 . . . FA 28 267.348 194.33 180.865 1 31.4 0 C10 UQ9 400 H 1 HETATM 21 C C8 UQ9 . . . FA 28 266.256 196.451 180.205 1 31.4 0 C8 UQ9 400 H 1 HETATM 22 C C7 UQ9 . . . FA 28 266.655 197.247 181.417 1 31.4 0 C7 UQ9 400 H 1 HETATM 23 C C6 UQ9 . . . FA 28 265.489 197.656 182.287 1 31.4 0 C6 UQ9 400 H 1 HETATM 24 C C1 UQ9 . . . FA 28 264.872 196.763 183.12 1 31.4 0 C1 UQ9 400 H 1 HETATM 25 C C1M UQ9 . . . FA 28 265.301 195.337 183.191 1 31.4 0 C1M UQ9 400 H 1 HETATM 26 C C2 UQ9 . . . FA 28 263.776 197.205 183.975 1 31.4 0 C2 UQ9 400 H 1 HETATM 27 O O2 UQ9 . . . FA 28 263.184 196.421 184.707 1 31.4 0 O2 UQ9 400 H 1 HETATM 28 C C3 UQ9 . . . FA 28 263.387 198.554 183.975 1 31.4 0 C3 UQ9 400 H 1 HETATM 29 O O3 UQ9 . . . FA 28 262.304 198.888 184.724 1 31.4 0 O3 UQ9 400 H 1 HETATM 30 C C3M UQ9 . . . FA 28 262.586 199.18 186.094 1 31.4 0 C3M UQ9 400 H 1 HETATM 31 C C4 UQ9 . . . FA 28 264.136 199.471 183.221 1 31.4 0 C4 UQ9 400 H 1 HETATM 32 O O4 UQ9 . . . FA 28 264.056 200.814 183.384 1 31.4 0 O4 UQ9 400 H 1 HETATM 33 C C4M UQ9 . . . FA 28 265.032 201.365 184.271 1 31.4 0 C4M UQ9 400 H 1 HETATM 34 C C5 UQ9 . . . FA 28 265.043 198.994 182.249 1 31.4 0 C5 UQ9 400 H 1 HETATM 35 O O5 UQ9 . . . FA 28 265.446 199.756 181.386 1 31.4 0 O5 UQ9 400 H 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 42 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 35 #