data_1Z9K
#
_model_server_result.job_id            7nz-jv7xlZVQA7nwISSlGQ 
_model_server_result.datetime_utc      '2024-11-12 20:58:57' 
_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          1z9k 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":856}' 
#
_entry.id    1Z9K 
#
_exptl.entry_id    1Z9K 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              863.343 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            UBIQUINONE-10 
_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            1Z9K 
_cell.length_a            207.8 
_cell.length_b            207.8 
_cell.length_c            107.5 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1Z9K 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        93 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 42 2 2' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA trimeric 3 author_and_software_defined_assembly 1 
PISA hexameric 6 software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H,I,J,K,L,M 1 1 
A,B,C,D,E,F,G,H,I,J,K,L,M 2 1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 6_566 x,-y+1,-z+1 1 0 0 0 -1 0 0 0 -1 0 207.8 107.5 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 6 G N N 
? 6 L 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
metalc ? metalc1 A NE2 HIS 153 A HIS 153 1_555 J MG BCL . B BCL 853 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.011 ? 
metalc ? metalc2 A NE2 HIS 173 A HIS 173 1_555 E MG BCL . A BCL 851 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.605 ? 
metalc ? metalc3 A NE2 HIS 190 A HIS 190 1_555 H FE FE . B FE 858 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? 
metalc ? metalc4 A NE2 HIS 230 A HIS 230 1_555 H FE FE . B FE 858 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? 
metalc ? metalc5 D MG BCL . A BCL 850 1_555 B NE2 HIS 182 B HIS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? 
metalc ? metalc6 B NE2 HIS 202 B HIS 202 1_555 I MG BCL . B BCL 852 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? 
metalc ? metalc7 B NE2 HIS 219 B HIS 219 1_555 H FE FE . B FE 858 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.911 ? 
metalc ? metalc8 B OE2 GLU 234 B GLU 234 1_555 H FE FE . B FE 858 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? 
metalc ? metalc9 B OE1 GLU 234 B GLU 234 1_555 H FE FE . B FE 858 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.719 ? 
metalc ? metalc10 C NE2 HIS 128 C HIS 128 1_555 M MN MN . C MN 860 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.595 ? 
metalc ? metalc11 C NE2 HIS 128 C HIS 128 6_566 M MN MN . C MN 860 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? 
#
_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 650 n n 
C1 C6 U10 doub 651 n n 
C1 C1M U10 sing 652 n n 
C2 C3 U10 sing 653 n n 
C2 O2 U10 doub 654 n n 
C3 C4 U10 doub 655 n n 
C3 O3 U10 sing 656 n n 
C4 C5 U10 sing 657 n n 
C4 O4 U10 sing 658 n n 
C5 C6 U10 sing 659 n n 
C5 O5 U10 doub 660 n n 
C6 C7 U10 sing 661 n n 
C1M H1M1 U10 sing 662 n n 
C1M H1M2 U10 sing 663 n n 
C1M H1M3 U10 sing 664 n n 
C3M O3 U10 sing 665 n n 
C3M H3M1 U10 sing 666 n n 
C3M H3M2 U10 sing 667 n n 
C3M H3M3 U10 sing 668 n n 
C4M O4 U10 sing 669 n n 
C4M H4M1 U10 sing 670 n n 
C4M H4M2 U10 sing 671 n n 
C4M H4M3 U10 sing 672 n n 
C7 C8 U10 sing 673 n n 
C7 H71 U10 sing 674 n n 
C7 H72 U10 sing 675 n n 
C8 C9 U10 doub 676 e n 
C8 H8 U10 sing 677 n n 
C9 C10 U10 sing 678 n n 
C9 C11 U10 sing 679 n n 
C10 H101 U10 sing 680 n n 
C10 H102 U10 sing 681 n n 
C10 H103 U10 sing 682 n n 
C11 C12 U10 sing 683 n n 
C11 H111 U10 sing 684 n n 
C11 H112 U10 sing 685 n n 
C12 C13 U10 sing 686 n n 
C12 H121 U10 sing 687 n n 
C12 H122 U10 sing 688 n n 
C13 C14 U10 doub 689 e n 
C13 H13 U10 sing 690 n n 
C14 C15 U10 sing 691 n n 
C14 C16 U10 sing 692 n n 
C15 H151 U10 sing 693 n n 
C15 H152 U10 sing 694 n n 
C15 H153 U10 sing 695 n n 
C16 C17 U10 sing 696 n n 
C16 H161 U10 sing 697 n n 
C16 H162 U10 sing 698 n n 
C17 C18 U10 sing 699 n n 
C17 H171 U10 sing 700 n n 
C17 H172 U10 sing 701 n n 
C18 C19 U10 doub 702 e n 
C18 H18 U10 sing 703 n n 
C19 C20 U10 sing 704 n n 
C19 C21 U10 sing 705 n n 
C20 H201 U10 sing 706 n n 
C20 H202 U10 sing 707 n n 
C20 H203 U10 sing 708 n n 
C21 C22 U10 sing 709 n n 
C21 H211 U10 sing 710 n n 
C21 H212 U10 sing 711 n n 
C22 C23 U10 sing 712 n n 
C22 H221 U10 sing 713 n n 
C22 H222 U10 sing 714 n n 
C23 C24 U10 doub 715 e n 
C23 H23 U10 sing 716 n n 
C24 C25 U10 sing 717 n n 
C24 C26 U10 sing 718 n n 
C25 H251 U10 sing 719 n n 
C25 H252 U10 sing 720 n n 
C25 H253 U10 sing 721 n n 
C26 C27 U10 sing 722 n n 
C26 H261 U10 sing 723 n n 
C26 H262 U10 sing 724 n n 
C27 C28 U10 sing 725 n n 
C27 H271 U10 sing 726 n n 
C27 H272 U10 sing 727 n n 
C28 C29 U10 doub 728 e n 
C28 H28 U10 sing 729 n n 
C29 C30 U10 sing 730 n n 
C29 C31 U10 sing 731 n n 
C30 H301 U10 sing 732 n n 
C30 H302 U10 sing 733 n n 
C30 H303 U10 sing 734 n n 
C31 C32 U10 sing 735 n n 
C31 H311 U10 sing 736 n n 
C31 H312 U10 sing 737 n n 
C32 C33 U10 sing 738 n n 
C32 H321 U10 sing 739 n n 
C32 H322 U10 sing 740 n n 
C33 C34 U10 doub 741 e n 
C33 H33 U10 sing 742 n n 
C34 C35 U10 sing 743 n n 
C34 C36 U10 sing 744 n n 
C35 H351 U10 sing 745 n n 
C35 H352 U10 sing 746 n n 
C35 H353 U10 sing 747 n n 
C36 C37 U10 sing 748 n n 
C36 H361 U10 sing 749 n n 
C36 H362 U10 sing 750 n n 
C37 C38 U10 sing 751 n n 
C37 H371 U10 sing 752 n n 
C37 H372 U10 sing 753 n n 
C38 C39 U10 doub 754 e n 
C38 H38 U10 sing 755 n n 
C39 C40 U10 sing 756 n n 
C39 C41 U10 sing 757 n n 
C40 H401 U10 sing 758 n n 
C40 H402 U10 sing 759 n n 
C40 H403 U10 sing 760 n n 
C41 C42 U10 sing 761 n n 
C41 H411 U10 sing 762 n n 
C41 H412 U10 sing 763 n n 
C42 C43 U10 sing 764 n n 
C42 H421 U10 sing 765 n n 
C42 H422 U10 sing 766 n n 
C43 C44 U10 doub 767 e n 
C43 H43 U10 sing 768 n n 
C44 C45 U10 sing 769 n n 
C44 C46 U10 sing 770 n n 
C45 H451 U10 sing 771 n n 
C45 H452 U10 sing 772 n n 
C45 H453 U10 sing 773 n n 
C46 C47 U10 sing 774 n n 
C46 H461 U10 sing 775 n n 
C46 H462 U10 sing 776 n n 
C47 C48 U10 sing 777 n n 
C47 H471 U10 sing 778 n n 
C47 H472 U10 sing 779 n n 
C48 C49 U10 doub 780 e n 
C48 H48 U10 sing 781 n n 
C49 C50 U10 sing 782 n n 
C49 C51 U10 sing 783 n n 
C50 H501 U10 sing 784 n n 
C50 H502 U10 sing 785 n n 
C50 H503 U10 sing 786 n n 
C51 C52 U10 sing 787 n n 
C51 H511 U10 sing 788 n n 
C51 H512 U10 sing 789 n n 
C52 C53 U10 sing 790 n n 
C52 H521 U10 sing 791 n n 
C52 H522 U10 sing 792 n n 
C53 C54 U10 doub 793 n n 
C53 H53 U10 sing 794 n n 
C54 C55 U10 sing 795 n n 
C54 C56 U10 sing 796 n n 
C55 H551 U10 sing 797 n n 
C55 H552 U10 sing 798 n n 
C55 H553 U10 sing 799 n n 
C56 H561 U10 sing 800 n n 
C56 H562 U10 sing 801 n n 
C56 H563 U10 sing 802 n n 
#
_atom_sites.entry_id                     1Z9K 
_atom_sites.fract_transf_matrix[1][1]    0.004812 
_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]    0.004812 
_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]    0.009302 
_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 BCL A 1 850 850 BCL BCL . 
E 4 BCL A 1 851 851 BCL BCL . 
F 5 BPH A 1 855 855 BPH BPH . 
G 6 U10 A 1 857 857 U10 U10 . 
H 7 FE B 1 858 858 FE FE . 
I 4 BCL B 1 852 852 BCL BCL . 
J 4 BCL B 1 853 853 BCL BCL . 
K 5 BPH B 1 854 854 BPH BPH . 
L 6 U10 B 1 856 856 U10 U10 . 
M 8 MN C 1 860 860 MN MN . 
#
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 . . . L 6 17.392 74.071 33.336 1 90 ? C1 U10 856 B 1 
HETATM 2 C C2 U10 . . . L 6 17.417 75.455 33.922 1 90 ? C2 U10 856 B 1 
HETATM 3 C C3 U10 . . . L 6 16.249 76.39 33.777 1 90 ? C3 U10 856 B 1 
HETATM 4 C C4 U10 . . . L 6 15.006 75.954 33.026 1 90 ? C4 U10 856 B 1 
HETATM 5 C C5 U10 . . . L 6 14.979 74.553 32.433 1 90 ? C5 U10 856 B 1 
HETATM 6 C C6 U10 . . . L 6 16.175 73.581 32.575 1 90 ? C6 U10 856 B 1 
HETATM 7 C C1M U10 . . . L 6 18.617 73.163 33.519 1 90 ? C1M U10 856 B 1 
HETATM 8 C C3M U10 . . . L 6 15.895 77.906 35.674 1 90 ? C3M U10 856 B 1 
HETATM 9 C C4M U10 . . . L 6 13.012 77.277 33.884 1 90 ? C4M U10 856 B 1 
HETATM 10 C C7 U10 . . . L 6 16.225 72.125 31.988 1 90 ? C7 U10 856 B 1 
HETATM 11 C C8 U10 . . . L 6 15.118 71.406 32.563 1 90 ? C8 U10 856 B 1 
HETATM 12 C C9 U10 . . . L 6 15.084 70.38 33.472 1 90 ? C9 U10 856 B 1 
HETATM 13 C C10 U10 . . . L 6 13.682 69.916 33.797 1 90 ? C10 U10 856 B 1 
HETATM 14 C C11 U10 . . . L 6 16.267 69.701 34.15 1 90 ? C11 U10 856 B 1 
HETATM 15 C C12 U10 . . . L 6 16.051 68.196 34.287 1 90 ? C12 U10 856 B 1 
HETATM 16 C C13 U10 . . . L 6 17.149 67.385 34.761 1 90 ? C13 U10 856 B 1 
HETATM 17 C C14 U10 . . . L 6 17.961 66.53 34.028 1 90 ? C14 U10 856 B 1 
HETATM 18 C C15 U10 . . . L 6 19.021 65.831 34.862 1 90 ? C15 U10 856 B 1 
HETATM 19 C C16 U10 . . . L 6 17.793 66.314 32.52 1 90 ? C16 U10 856 B 1 
HETATM 20 C C17 U10 . . . L 6 18.765 65.331 31.863 1 90 ? C17 U10 856 B 1 
HETATM 21 C C18 U10 . . . L 6 18.121 64.046 31.581 1 90 ? C18 U10 856 B 1 
HETATM 22 C C19 U10 . . . L 6 17.607 63.556 30.378 1 90 ? C19 U10 856 B 1 
HETATM 23 C C20 U10 . . . L 6 16.988 62.157 30.4 1 90 ? C20 U10 856 B 1 
HETATM 24 C C21 U10 . . . L 6 17.619 64.304 29.056 1 90 ? C21 U10 856 B 1 
HETATM 25 C C22 U10 . . . L 6 16.624 63.793 28.014 1 90 ? C22 U10 856 B 1 
HETATM 26 C C23 U10 . . . L 6 17.339 63.783 26.759 1 90 ? C23 U10 856 B 1 
HETATM 27 C C24 U10 . . . L 6 16.91 63.354 25.5 1 90 ? C24 U10 856 B 1 
HETATM 28 C C25 U10 . . . L 6 17.953 63.497 24.376 1 90 ? C25 U10 856 B 1 
HETATM 29 C C26 U10 . . . L 6 15.506 62.776 25.198 1 90 ? C26 U10 856 B 1 
HETATM 30 C C27 U10 . . . L 6 15.263 62.378 23.731 1 90 ? C27 U10 856 B 1 
HETATM 31 C C28 U10 . . . L 6 14.142 61.44 23.6 1 90 ? C28 U10 856 B 1 
HETATM 32 C C29 U10 . . . L 6 13.777 60.795 22.388 1 90 ? C29 U10 856 B 1 
HETATM 33 C C30 U10 . . . L 6 12.579 59.829 22.403 1 90 ? C30 U10 856 B 1 
HETATM 34 C C31 U10 . . . L 6 14.541 61.023 21.064 1 90 ? C31 U10 856 B 1 
HETATM 35 C C32 U10 . . . L 6 13.853 62.011 20.114 1 90 ? C32 U10 856 B 1 
HETATM 36 C C33 U10 . . . L 6 14.908 62.702 19.375 1 90 ? C33 U10 856 B 1 
HETATM 37 C C34 U10 . . . L 6 14.749 63.861 18.593 1 90 ? C34 U10 856 B 1 
HETATM 38 C C35 U10 . . . L 6 16.019 64.383 17.927 1 90 ? C35 U10 856 B 1 
HETATM 39 C C36 U10 . . . L 6 13.414 64.618 18.367 1 90 ? C36 U10 856 B 1 
HETATM 40 C C37 U10 . . . L 6 12.875 64.558 16.927 1 90 ? C37 U10 856 B 1 
HETATM 41 C C38 U10 . . . L 6 11.759 63.613 16.923 1 90 ? C38 U10 856 B 1 
HETATM 42 C C39 U10 . . . L 6 11.076 63.129 15.797 1 90 ? C39 U10 856 B 1 
HETATM 43 C C40 U10 . . . L 6 9.936 62.144 16.029 1 90 ? C40 U10 856 B 1 
HETATM 44 C C41 U10 . . . L 6 11.403 63.527 14.36 1 90 ? C41 U10 856 B 1 
HETATM 45 O O2 U10 . . . L 6 18.421 75.831 34.537 1 90 ? O2 U10 856 B 1 
HETATM 46 O O3 U10 . . . L 6 16.336 77.672 34.342 1 90 ? O3 U10 856 B 1 
HETATM 47 O O4 U10 . . . L 6 13.871 76.807 32.85 1 90 ? O4 U10 856 B 1 
HETATM 48 O O5 U10 . . . L 6 13.945 74.234 31.825 1 90 ? O5 U10 856 B 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           331 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           48 
#