data_6RKO # _model_server_result.job_id ORg66yChpVxvNu05MYw-dA _model_server_result.datetime_utc '2024-10-25 20:25:48' _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 6rko # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 6RKO # _exptl.entry_id 6RKO _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 727.109 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description Ubiquinone-8 _entity.pdbx_number_of_molecules 1 _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 6RKO _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RKO _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 PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 5 _struct_asym.id E _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 metalc ? metalc1 B NE2 HIS 19 A HIS 19 1_555 J FE HDD . A HDD 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.631 ? metalc ? metalc2 B NE2 HIS 186 A HIS 186 1_555 L FE HEB . A HEB 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? metalc ? metalc3 B OE1 GLU 445 A GLU 445 1_555 K FE HEB . A HEB 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? # _chem_comp.formula 'C49 H74 O4' _chem_comp.formula_weight 727.109 _chem_comp.id UQ8 _chem_comp.mon_nstd_flag . _chem_comp.name Ubiquinone-8 _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '2,3-dimethoxy-5-methyl-6-[(6E,10E,14E,18E,22E,26E)-3,7,11,15,19,23,27,31-octamethyldotriaconta-2,6,10,14,18,22,26,30-oc taen-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 C45 C44 UQ8 sing 660 n n C45 H45 UQ8 sing 661 n n C45 H45A UQ8 sing 662 n n C45 H45B UQ8 sing 663 n n C43 C44 UQ8 doub 664 n n C44 C46 UQ8 sing 665 n n C46 H46 UQ8 sing 666 n n C46 H46A UQ8 sing 667 n n C46 H46B UQ8 sing 668 n n C42 C43 UQ8 sing 669 n n C43 H43 UQ8 sing 670 n n C41 C42 UQ8 sing 671 n n C42 H42 UQ8 sing 672 n n C42 H42A UQ8 sing 673 n n C39 C41 UQ8 sing 674 n n C41 H41 UQ8 sing 675 n n C41 H41A UQ8 sing 676 n n C40 C39 UQ8 sing 677 n n C38 C39 UQ8 doub 678 n n C40 H40 UQ8 sing 679 n n C40 H40A UQ8 sing 680 n n C40 H40B UQ8 sing 681 e n C37 C38 UQ8 sing 682 n n C38 H38 UQ8 sing 683 n n C37 C36 UQ8 sing 684 n n C37 H37 UQ8 sing 685 n n C37 H37A UQ8 sing 686 n n C34 C36 UQ8 sing 687 n n C36 H36 UQ8 sing 688 n n C36 H36A UQ8 sing 689 n n C33 C34 UQ8 doub 690 n n C34 C35 UQ8 sing 691 n n C35 H35 UQ8 sing 692 n n C35 H35A UQ8 sing 693 n n C32 C33 UQ8 sing 694 e n C33 H33 UQ8 sing 695 n n C35 H35B UQ8 sing 696 n n C31 C32 UQ8 sing 697 n n C32 H32 UQ8 sing 698 n n C32 H32A UQ8 sing 699 n n C29 C31 UQ8 sing 700 n n C31 H31 UQ8 sing 701 n n C31 H31A UQ8 sing 702 n n C28 C29 UQ8 doub 703 n n C30 C29 UQ8 sing 704 n n C30 H30 UQ8 sing 705 n n C30 H30A UQ8 sing 706 n n C30 H30B UQ8 sing 707 e n C27 C28 UQ8 sing 708 n n C28 H28 UQ8 sing 709 n n C26 C27 UQ8 sing 710 n n C27 H27 UQ8 sing 711 n n C27 H27A UQ8 sing 712 n n C24 C26 UQ8 sing 713 n n C26 H26 UQ8 sing 714 n n C26 H26A UQ8 sing 715 n n C23 C24 UQ8 doub 716 n n C24 C25 UQ8 sing 717 n n C25 H25 UQ8 sing 718 n n C25 H25A UQ8 sing 719 n n C25 H25B UQ8 sing 720 e n C22 C23 UQ8 sing 721 n n C23 H23 UQ8 sing 722 n n C21 C22 UQ8 sing 723 n n C22 H22 UQ8 sing 724 n n C22 H22A UQ8 sing 725 n n C19 C21 UQ8 sing 726 n n C21 H21 UQ8 sing 727 n n C21 H21A UQ8 sing 728 n n C20 C19 UQ8 sing 729 n n C18 C19 UQ8 doub 730 n n C20 H20 UQ8 sing 731 n n C20 H20A UQ8 sing 732 n n C20 H20B UQ8 sing 733 e n C17 C18 UQ8 sing 734 n n C18 H18 UQ8 sing 735 n n C16 C17 UQ8 sing 736 n n C17 H17 UQ8 sing 737 n n C17 H17A UQ8 sing 738 n n C14 C16 UQ8 sing 739 n n C16 H16 UQ8 sing 740 n n C16 H16A UQ8 sing 741 n n C13 C14 UQ8 doub 742 n n C15 C14 UQ8 sing 743 n n C15 H15 UQ8 sing 744 n n C15 H15A UQ8 sing 745 n n C15 H15B UQ8 sing 746 e n C12 C13 UQ8 sing 747 n n C13 H13 UQ8 sing 748 n n C11 C12 UQ8 sing 749 n n C12 H12 UQ8 sing 750 n n C12 H12A UQ8 sing 751 n n C9 C11 UQ8 sing 752 n n C11 H11 UQ8 sing 753 n n C11 H11A UQ8 sing 754 n n C8 C9 UQ8 doub 755 n n C10 C9 UQ8 sing 756 n n C10 H10 UQ8 sing 757 n n C10 H10A UQ8 sing 758 n n C10 H10B UQ8 sing 759 e n C7 C8 UQ8 sing 760 n n C8 H8 UQ8 sing 761 n n C6 C7 UQ8 sing 762 n n C7 H7 UQ8 sing 763 n n C7 H7A UQ8 sing 764 n n C1 C6 UQ8 doub 765 n n C5 C6 UQ8 sing 766 n n C2 C1 UQ8 sing 767 n n C1 C1M UQ8 sing 768 n n C1M H1M UQ8 sing 769 n n C1M H1MA UQ8 sing 770 n n C1M H1MB UQ8 sing 771 n n O2 C2 UQ8 doub 772 n n C3 C2 UQ8 sing 773 n n O3 C3 UQ8 sing 774 n n C3 C4 UQ8 doub 775 n n C3M O3 UQ8 sing 776 n n C3M H3M UQ8 sing 777 n n C3M H3MA UQ8 sing 778 n n C3M H3MB UQ8 sing 779 n n O4 C4 UQ8 sing 780 n n C4 C5 UQ8 sing 781 n n C4M O4 UQ8 sing 782 n n C4M H4M UQ8 sing 783 n n C4M H4MA UQ8 sing 784 n n C4M H4MB UQ8 sing 785 n n C5 O5 UQ8 doub 786 n n # _atom_sites.entry_id 6RKO _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 E 5 UQ8 B 1 401 1 UQ8 UQ8 . F 6 POV B 1 402 401 POV POV . G 6 POV B 1 403 501 POV POV . H 6 POV A 1 601 601 POV POV . I 6 POV A 1 602 701 POV POV . J 7 HDD A 1 603 1 HDD HDD . K 8 HEB A 1 604 502 HEB HEB . L 8 HEB A 1 605 501 HEB HEB . M 9 OXY A 1 606 1 OXY OXY . N 10 HOH B 1 501 51 HOH HOH . N 10 HOH B 2 502 83 HOH HOH . N 10 HOH B 3 503 71 HOH HOH . N 10 HOH B 4 504 85 HOH HOH . N 10 HOH B 5 505 66 HOH HOH . N 10 HOH B 6 506 90 HOH HOH . N 10 HOH B 7 507 70 HOH HOH . N 10 HOH B 8 508 50 HOH HOH . N 10 HOH B 9 509 59 HOH HOH . N 10 HOH B 10 510 82 HOH HOH . N 10 HOH B 11 511 67 HOH HOH . N 10 HOH B 12 512 88 HOH HOH . N 10 HOH B 13 513 80 HOH HOH . O 10 HOH A 1 701 91 HOH HOH . O 10 HOH A 2 702 74 HOH HOH . O 10 HOH A 3 703 89 HOH HOH . O 10 HOH A 4 704 62 HOH HOH . O 10 HOH A 5 705 73 HOH HOH . O 10 HOH A 6 706 38 HOH HOH . O 10 HOH A 7 707 72 HOH HOH . O 10 HOH A 8 708 68 HOH HOH . O 10 HOH A 9 709 33 HOH HOH . O 10 HOH A 10 710 44 HOH HOH . O 10 HOH A 11 711 31 HOH HOH . O 10 HOH A 12 712 65 HOH HOH . O 10 HOH A 13 713 11 HOH HOH . O 10 HOH A 14 714 35 HOH HOH . O 10 HOH A 15 715 76 HOH HOH . O 10 HOH A 16 716 45 HOH HOH . O 10 HOH A 17 717 77 HOH HOH . O 10 HOH A 18 718 39 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 C45 UQ8 . . . E 5 109.436 120.634 132.758 1 3.55 ? C45 UQ8 401 B 1 HETATM 2 C C44 UQ8 . . . E 5 109.809 122.111 132.654 1 3.55 ? C44 UQ8 401 B 1 HETATM 3 C C46 UQ8 . . . E 5 108.893 123.07 131.886 1 3.55 ? C46 UQ8 401 B 1 HETATM 4 C C43 UQ8 . . . E 5 110.944 122.557 133.228 1 3.55 ? C43 UQ8 401 B 1 HETATM 5 C C42 UQ8 . . . E 5 111.364 124.042 133.149 1 3.55 ? C42 UQ8 401 B 1 HETATM 6 C C41 UQ8 . . . E 5 112.908 124.139 133.29 1 3.55 ? C41 UQ8 401 B 1 HETATM 7 C C39 UQ8 . . . E 5 113.31 124.727 134.669 1 3.55 ? C39 UQ8 401 B 1 HETATM 8 C C40 UQ8 . . . E 5 112.237 125.063 135.703 1 3.55 ? C40 UQ8 401 B 1 HETATM 9 C C38 UQ8 . . . E 5 114.62 124.952 134.971 1 3.55 ? C38 UQ8 401 B 1 HETATM 10 C C37 UQ8 . . . E 5 115.743 124.622 133.953 1 3.55 ? C37 UQ8 401 B 1 HETATM 11 C C36 UQ8 . . . E 5 116.657 125.869 133.696 1 3.55 ? C36 UQ8 401 B 1 HETATM 12 C C34 UQ8 . . . E 5 117.723 126.053 134.81 1 3.55 ? C34 UQ8 401 B 1 HETATM 13 C C35 UQ8 . . . E 5 117.394 126.877 136.064 1 3.55 ? C35 UQ8 401 B 1 HETATM 14 C C33 UQ8 . . . E 5 118.979 125.508 134.676 1 3.55 ? C33 UQ8 401 B 1 HETATM 15 C C32 UQ8 . . . E 5 119.325 124.685 133.422 1 3.55 ? C32 UQ8 401 B 1 HETATM 16 C C31 UQ8 . . . E 5 120.881 124.564 133.217 1 3.55 ? C31 UQ8 401 B 1 HETATM 17 C C29 UQ8 . . . E 5 121.429 123.392 134.072 1 3.55 ? C29 UQ8 401 B 1 HETATM 18 C C30 UQ8 . . . E 5 121.919 123.671 135.476 1 3.55 ? C30 UQ8 401 B 1 HETATM 19 C C28 UQ8 . . . E 5 121.475 122.128 133.585 1 3.55 ? C28 UQ8 401 B 1 HETATM 20 C C27 UQ8 . . . E 5 120.99 121.782 132.158 1 3.55 ? C27 UQ8 401 B 1 HETATM 21 C C26 UQ8 . . . E 5 119.513 121.312 132.233 1 3.55 ? C26 UQ8 401 B 1 HETATM 22 C C24 UQ8 . . . E 5 119.325 119.964 131.524 1 3.55 ? C24 UQ8 401 B 1 HETATM 23 C C25 UQ8 . . . E 5 120.066 119.657 130.227 1 3.55 ? C25 UQ8 401 B 1 HETATM 24 C C23 UQ8 . . . E 5 118.481 119.057 132.069 1 3.55 ? C23 UQ8 401 B 1 HETATM 25 C C22 UQ8 . . . E 5 118.235 117.674 131.415 1 3.55 ? C22 UQ8 401 B 1 HETATM 26 C C21 UQ8 . . . E 5 117.298 116.849 132.362 1 3.55 ? C21 UQ8 401 B 1 HETATM 27 C C19 UQ8 . . . E 5 118.074 115.652 132.981 1 3.55 ? C19 UQ8 401 B 1 HETATM 28 C C20 UQ8 . . . E 5 118.748 114.631 132.064 1 3.55 ? C20 UQ8 401 B 1 HETATM 29 C C18 UQ8 . . . E 5 118.156 115.496 134.323 1 3.55 ? C18 UQ8 401 B 1 HETATM 30 C C17 UQ8 . . . E 5 117.503 116.495 135.296 1 3.55 ? C17 UQ8 401 B 1 HETATM 31 C C16 UQ8 . . . E 5 116.065 116.02 135.657 1 3.55 ? C16 UQ8 401 B 1 HETATM 32 C C14 UQ8 . . . E 5 115.983 115.609 137.135 1 3.55 ? C14 UQ8 401 B 1 HETATM 33 C C15 UQ8 . . . E 5 116.931 114.547 137.701 1 3.55 ? C15 UQ8 401 B 1 HETATM 34 C C13 UQ8 . . . E 5 115.047 116.18 137.932 1 3.55 ? C13 UQ8 401 B 1 HETATM 35 C C12 UQ8 . . . E 5 114.941 115.776 139.426 1 3.55 ? C12 UQ8 401 B 1 HETATM 36 C C11 UQ8 . . . E 5 113.421 115.646 139.769 1 3.55 ? C11 UQ8 401 B 1 HETATM 37 C C9 UQ8 . . . E 5 113.208 115.557 141.307 1 3.55 ? C9 UQ8 401 B 1 HETATM 38 C C10 UQ8 . . . E 5 114.241 114.874 142.2 1 3.55 ? C10 UQ8 401 B 1 HETATM 39 C C8 UQ8 . . . E 5 112.089 116.088 141.84 1 3.55 ? C8 UQ8 401 B 1 HETATM 40 C C7 UQ8 . . . E 5 111.848 116.016 143.362 1 3.55 ? C7 UQ8 401 B 1 HETATM 41 C C6 UQ8 . . . E 5 110.332 115.76 143.604 1 3.55 ? C6 UQ8 401 B 1 HETATM 42 C C1 UQ8 . . . E 5 109.344 116.933 143.662 1 3.55 ? C1 UQ8 401 B 1 HETATM 43 C C1M UQ8 . . . E 5 109.844 118.361 143.489 1 3.55 ? C1M UQ8 401 B 1 HETATM 44 C C2 UQ8 . . . E 5 107.851 116.668 143.901 1 3.55 ? C2 UQ8 401 B 1 HETATM 45 O O2 UQ8 . . . E 5 107.09 117.573 143.948 1 3.55 ? O2 UQ8 401 B 1 HETATM 46 C C3 UQ8 . . . E 5 107.351 115.229 144.069 1 3.55 ? C3 UQ8 401 B 1 HETATM 47 O O3 UQ8 . . . E 5 105.975 114.996 144.29 1 3.55 ? O3 UQ8 401 B 1 HETATM 48 C C3M UQ8 . . . E 5 105.663 114.788 145.644 1 3.55 ? C3M UQ8 401 B 1 HETATM 49 C C4 UQ8 . . . E 5 108.339 114.054 144.001 1 3.55 ? C4 UQ8 401 B 1 HETATM 50 O O4 UQ8 . . . E 5 107.907 112.72 144.168 1 3.55 ? O4 UQ8 401 B 1 HETATM 51 C C4M UQ8 . . . E 5 107.023 112.244 143.191 1 3.55 ? C4M UQ8 401 B 1 HETATM 52 C C5 UQ8 . . . E 5 109.833 114.323 143.774 1 3.55 ? C5 UQ8 401 B 1 HETATM 53 O O5 UQ8 . . . E 5 110.595 113.427 143.725 1 3.55 ? O5 UQ8 401 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 334 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 53 #