data_8ZI7 # _model_server_result.job_id ZiTnLnpOcsAs6etkb2t9Vg _model_server_result.datetime_utc '2025-07-24 15:33:50' _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 8zi7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 8ZI7 # _exptl.entry_id 8ZI7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 642.732 _entity.id 3 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description 1-O-[(8alpha,9beta,10alpha,13alpha)-13-(beta-D-glucopyranosyloxy)-18-oxokaur-16-en-18-yl]-beta-D-glucopyranose _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 8ZI7 _cell.length_a 74.026 _cell.length_b 77.228 _cell.length_c 86.134 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8ZI7 _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 A O GLY 330 A GLY 330 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc2 A O LEU 458 A LEU 458 1_555 B NA NA . A NA 501 2_454 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? # _chem_comp.formula 'C32 H50 O13' _chem_comp.formula_weight 642.732 _chem_comp.id AQ9 _chem_comp.mon_nstd_flag . _chem_comp.name 1-O-[(8alpha,9beta,10alpha,13alpha)-13-(beta-D-glucopyranosyloxy)-18-oxokaur-16-en-18-yl]-beta-D-glucopyranose _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Rubusoside # 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 C40 C41 AQ9 sing 13 n n C40 C45 AQ9 sing 14 n n C41 C42 AQ9 sing 15 n n C45 C44 AQ9 sing 16 n n O C15 AQ9 doub 17 n n C42 C14 AQ9 sing 18 n n C42 C15 AQ9 sing 19 n n C42 C43 AQ9 sing 20 n n C44 C16 AQ9 sing 21 n n C44 C8 AQ9 sing 22 n n C44 C43 AQ9 sing 23 n n C39 C8 AQ9 sing 24 n n C39 C12 AQ9 sing 25 n n C15 O1 AQ9 sing 26 n n C8 C9 AQ9 sing 27 n n C43 C33 AQ9 sing 28 n n C12 C18 AQ9 sing 29 n n O6 C6 AQ9 sing 30 n n O1 C1 AQ9 sing 31 n n C9 C17 AQ9 sing 32 n n C9 C7 AQ9 sing 33 n n C9 C10 AQ9 sing 34 n n C33 C7 AQ9 sing 35 n n C17 C46 AQ9 sing 36 n n C1 O5 AQ9 sing 37 n n C1 C2 AQ9 sing 38 n n O5 C5 AQ9 sing 39 n n C46 C18 AQ9 sing 40 n n C46 C19 AQ9 doub 41 n n C18 C10 AQ9 sing 42 n n C18 O19 AQ9 sing 43 n n C6 C5 AQ9 sing 44 n n C5 C4 AQ9 sing 45 n n O19 C11 AQ9 sing 46 n n O2 C2 AQ9 sing 47 n n C2 C3 AQ9 sing 48 n n C4 C3 AQ9 sing 49 n n C4 O4 AQ9 sing 50 n n C3 O3 AQ9 sing 51 n n C11 O51 AQ9 sing 52 n n C11 C21 AQ9 sing 53 n n O51 C51 AQ9 sing 54 n n O21 C21 AQ9 sing 55 n n C21 C31 AQ9 sing 56 n n O61 C61 AQ9 sing 57 n n C51 C61 AQ9 sing 58 n n C51 C71 AQ9 sing 59 n n C31 C71 AQ9 sing 60 n n C31 O31 AQ9 sing 61 n n C71 O41 AQ9 sing 62 n n C19 H1 AQ9 sing 63 n n C19 H2 AQ9 sing 64 n n C17 H3 AQ9 sing 65 n n C17 H4 AQ9 sing 66 n n C1 H5 AQ9 sing 67 n n C3 H6 AQ9 sing 68 n n C5 H7 AQ9 sing 69 n n C14 H8 AQ9 sing 70 n n C14 H9 AQ9 sing 71 n n C14 H10 AQ9 sing 72 n n C7 H11 AQ9 sing 73 n n C7 H12 AQ9 sing 74 n n C6 H13 AQ9 sing 75 n n C6 H14 AQ9 sing 76 n n C10 H15 AQ9 sing 77 n n C10 H16 AQ9 sing 78 n n C12 H17 AQ9 sing 79 n n C12 H18 AQ9 sing 80 n n C11 H19 AQ9 sing 81 n n O6 H20 AQ9 sing 82 n n C4 H21 AQ9 sing 83 n n O4 H22 AQ9 sing 84 n n O3 H23 AQ9 sing 85 n n C2 H24 AQ9 sing 86 n n O2 H25 AQ9 sing 87 n n O61 H26 AQ9 sing 88 n n C61 H27 AQ9 sing 89 n n C61 H28 AQ9 sing 90 n n C51 H29 AQ9 sing 91 n n C71 H30 AQ9 sing 92 n n O41 H31 AQ9 sing 93 n n C31 H32 AQ9 sing 94 n n O31 H33 AQ9 sing 95 n n C21 H34 AQ9 sing 96 n n O21 H35 AQ9 sing 97 n n C41 H36 AQ9 sing 98 n n C41 H37 AQ9 sing 99 n n C43 H38 AQ9 sing 100 n n C33 H39 AQ9 sing 101 n n C33 H40 AQ9 sing 102 n n C39 H41 AQ9 sing 103 n n C39 H42 AQ9 sing 104 n n C8 H43 AQ9 sing 105 n n C16 H44 AQ9 sing 106 n n C16 H45 AQ9 sing 107 n n C16 H46 AQ9 sing 108 n n C45 H47 AQ9 sing 109 n n C45 H48 AQ9 sing 110 n n C40 H49 AQ9 sing 111 n n C40 H50 AQ9 sing 112 n n # _atom_sites.entry_id 8ZI7 _atom_sites.fract_transf_matrix[1][1] 0.013509 _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] 0.012949 _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] 0.01161 _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 B 2 NA A 1 501 1 NA NA . C 3 AQ9 A 1 502 501 AQ9 AQ9 . D 4 SCN A 1 503 503 SCN SCN . E 5 EOH A 1 504 504 EOH EOH . F 6 IPA A 1 505 505 IPA IPA . G 7 EDO A 1 506 506 EDO EDO . H 4 SCN A 1 507 507 SCN SCN . I 5 EOH A 1 508 508 EOH EOH . J 8 HOH A 1 601 7 HOH HOH . J 8 HOH A 2 602 73 HOH HOH . J 8 HOH A 3 603 35 HOH HOH . J 8 HOH A 4 604 9 HOH HOH . J 8 HOH A 5 605 68 HOH HOH . J 8 HOH A 6 606 63 HOH HOH . J 8 HOH A 7 607 54 HOH HOH . J 8 HOH A 8 608 27 HOH HOH . J 8 HOH A 9 609 25 HOH HOH . J 8 HOH A 10 610 33 HOH HOH . J 8 HOH A 11 611 34 HOH HOH . J 8 HOH A 12 612 32 HOH HOH . J 8 HOH A 13 613 77 HOH HOH . J 8 HOH A 14 614 72 HOH HOH . J 8 HOH A 15 615 76 HOH HOH . J 8 HOH A 16 616 43 HOH HOH . J 8 HOH A 17 617 28 HOH HOH . J 8 HOH A 18 618 71 HOH HOH . J 8 HOH A 19 619 40 HOH HOH . J 8 HOH A 20 620 16 HOH HOH . J 8 HOH A 21 621 15 HOH HOH . J 8 HOH A 22 622 3 HOH HOH . J 8 HOH A 23 623 23 HOH HOH . J 8 HOH A 24 624 31 HOH HOH . J 8 HOH A 25 625 14 HOH HOH . J 8 HOH A 26 626 64 HOH HOH . J 8 HOH A 27 627 17 HOH HOH . J 8 HOH A 28 628 30 HOH HOH . J 8 HOH A 29 629 2 HOH HOH . J 8 HOH A 30 630 44 HOH HOH . J 8 HOH A 31 631 38 HOH HOH . J 8 HOH A 32 632 4 HOH HOH . J 8 HOH A 33 633 11 HOH HOH . J 8 HOH A 34 634 70 HOH HOH . J 8 HOH A 35 635 45 HOH HOH . J 8 HOH A 36 636 29 HOH HOH . J 8 HOH A 37 637 69 HOH HOH . J 8 HOH A 38 638 37 HOH HOH . J 8 HOH A 39 639 74 HOH HOH . J 8 HOH A 40 640 39 HOH HOH . J 8 HOH A 41 641 21 HOH HOH . J 8 HOH A 42 642 13 HOH HOH . J 8 HOH A 43 643 46 HOH HOH . J 8 HOH A 44 644 19 HOH HOH . J 8 HOH A 45 645 53 HOH HOH . J 8 HOH A 46 646 12 HOH HOH . J 8 HOH A 47 647 61 HOH HOH . J 8 HOH A 48 648 1 HOH HOH . J 8 HOH A 49 649 22 HOH HOH . J 8 HOH A 50 650 26 HOH HOH . J 8 HOH A 51 651 52 HOH HOH . J 8 HOH A 52 652 58 HOH HOH . J 8 HOH A 53 653 56 HOH HOH . J 8 HOH A 54 654 62 HOH HOH . J 8 HOH A 55 655 6 HOH HOH . J 8 HOH A 56 656 47 HOH HOH . J 8 HOH A 57 657 48 HOH HOH . J 8 HOH A 58 658 5 HOH HOH . J 8 HOH A 59 659 51 HOH HOH . J 8 HOH A 60 660 18 HOH HOH . J 8 HOH A 61 661 24 HOH HOH . J 8 HOH A 62 662 60 HOH HOH . J 8 HOH A 63 663 59 HOH HOH . J 8 HOH A 64 664 50 HOH HOH . J 8 HOH A 65 665 20 HOH HOH . J 8 HOH A 66 666 57 HOH HOH . J 8 HOH A 67 667 75 HOH HOH . J 8 HOH A 68 668 10 HOH HOH . J 8 HOH A 69 669 66 HOH HOH . J 8 HOH A 70 670 36 HOH HOH . J 8 HOH A 71 671 8 HOH HOH . J 8 HOH A 72 672 42 HOH HOH . J 8 HOH A 73 673 65 HOH HOH . J 8 HOH A 74 674 49 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 C19 AQ9 . . . C 3 -27.107 11.483 -9.725 1 47.99 ? C19 AQ9 502 A 1 HETATM 2 C C18 AQ9 . . . C 3 -27.661 11.608 -7.274 1 46.84 ? C18 AQ9 502 A 1 HETATM 3 C C17 AQ9 . . . C 3 -25.729 12.858 -8.086 1 47.58 ? C17 AQ9 502 A 1 HETATM 4 C C1 AQ9 . . . C 3 -26.08 12.754 -0.788 1 52.83 ? C1 AQ9 502 A 1 HETATM 5 C C3 AQ9 . . . C 3 -25.831 10.299 -0.182 1 61.52 ? C3 AQ9 502 A 1 HETATM 6 C C5 AQ9 . . . C 3 -25.954 12.165 1.481 1 62.6 ? C5 AQ9 502 A 1 HETATM 7 C C15 AQ9 . . . C 3 -26.181 14.905 -1.817 1 48.13 ? C15 AQ9 502 A 1 HETATM 8 C C14 AQ9 . . . C 3 -24.074 16.053 -2.495 1 46.84 ? C14 AQ9 502 A 1 HETATM 9 C C7 AQ9 . . . C 3 -24.596 13.305 -5.854 1 46.98 ? C7 AQ9 502 A 1 HETATM 10 C C6 AQ9 . . . C 3 -25.535 12.724 2.816 1 57.35 ? C6 AQ9 502 A 1 HETATM 11 C C9 AQ9 . . . C 3 -25.921 13.086 -6.559 1 44.25 ? C9 AQ9 502 A 1 HETATM 12 C C10 AQ9 . . . C 3 -26.57 11.745 -6.182 1 42.42 ? C10 AQ9 502 A 1 HETATM 13 C C12 AQ9 . . . C 3 -28.745 12.68 -7.091 1 43.58 ? C12 AQ9 502 A 1 HETATM 14 C C11 AQ9 . . . C 3 -28.531 9.653 -6.191 1 54.37 ? C11 AQ9 502 A 1 HETATM 15 O O6 AQ9 . . . C 3 -26.402 13.783 3.21 1 58.73 ? O6 AQ9 502 A 1 HETATM 16 C C4 AQ9 . . . C 3 -25.381 10.788 1.191 1 67.62 ? C4 AQ9 502 A 1 HETATM 17 O O4 AQ9 . . . C 3 -25.831 9.912 2.211 1 77.26 ? O4 AQ9 502 A 1 HETATM 18 O O3 AQ9 . . . C 3 -25.091 9.134 -0.566 1 61.31 ? O3 AQ9 502 A 1 HETATM 19 O O5 AQ9 . . . C 3 -25.477 13.055 0.459 1 52.73 ? O5 AQ9 502 A 1 HETATM 20 O O1 AQ9 . . . C 3 -25.641 13.68 -1.772 1 51.98 ? O1 AQ9 502 A 1 HETATM 21 C C2 AQ9 . . . C 3 -25.644 11.37 -1.261 1 54.82 ? C2 AQ9 502 A 1 HETATM 22 O O2 AQ9 . . . C 3 -26.379 11.013 -2.428 1 47.86 ? O2 AQ9 502 A 1 HETATM 23 O O61 AQ9 . . . C 3 -25.104 7.729 -4.911 1 64.45 ? O61 AQ9 502 A 1 HETATM 24 C C61 AQ9 . . . C 3 -26.317 6.988 -4.994 1 61.33 ? C61 AQ9 502 A 1 HETATM 25 C C51 AQ9 . . . C 3 -27.516 7.907 -4.923 1 58.64 ? C51 AQ9 502 A 1 HETATM 26 C C71 AQ9 . . . C 3 -28.837 7.146 -4.827 1 50.66 ? C71 AQ9 502 A 1 HETATM 27 O O41 AQ9 . . . C 3 -28.814 6.499 -3.568 1 49.82 ? O41 AQ9 502 A 1 HETATM 28 C C31 AQ9 . . . C 3 -30.029 8.097 -4.949 1 53.38 ? C31 AQ9 502 A 1 HETATM 29 O O31 AQ9 . . . C 3 -31.271 7.38 -4.991 1 47.96 ? O31 AQ9 502 A 1 HETATM 30 O O51 AQ9 . . . C 3 -27.487 8.707 -6.125 1 57.66 ? O51 AQ9 502 A 1 HETATM 31 C C21 AQ9 . . . C 3 -29.887 8.946 -6.203 1 52.68 ? C21 AQ9 502 A 1 HETATM 32 O O21 AQ9 . . . C 3 -30.952 9.89 -6.289 1 47.89 ? O21 AQ9 502 A 1 HETATM 33 O O AQ9 . . . C 3 -27.062 15.282 -1.093 1 48.1 ? O AQ9 502 A 1 HETATM 34 C C42 AQ9 . . . C 3 -25.529 15.753 -2.915 1 42.35 ? C42 AQ9 502 A 1 HETATM 35 C C41 AQ9 . . . C 3 -26.273 17.09 -3.039 1 42.76 ? C41 AQ9 502 A 1 HETATM 36 C C43 AQ9 . . . C 3 -25.572 15.017 -4.291 1 46.46 ? C43 AQ9 502 A 1 HETATM 37 C C33 AQ9 . . . C 3 -24.731 13.747 -4.412 1 44.64 ? C33 AQ9 502 A 1 HETATM 38 C C46 AQ9 . . . C 3 -26.846 11.931 -8.513 1 45.75 ? C46 AQ9 502 A 1 HETATM 39 C C39 AQ9 . . . C 3 -28.18 14.107 -7.112 1 46.28 ? C39 AQ9 502 A 1 HETATM 40 C C8 AQ9 . . . C 3 -26.852 14.303 -6.341 1 40.96 ? C8 AQ9 502 A 1 HETATM 41 C C44 AQ9 . . . C 3 -27.002 14.81 -4.869 1 43.91 ? C44 AQ9 502 A 1 HETATM 42 C C16 AQ9 . . . C 3 -27.871 13.883 -4.006 1 41.62 ? C16 AQ9 502 A 1 HETATM 43 C C45 AQ9 . . . C 3 -27.664 16.201 -4.929 1 46.77 ? C45 AQ9 502 A 1 HETATM 44 C C40 AQ9 . . . C 3 -27.667 16.968 -3.619 1 45.14 ? C40 AQ9 502 A 1 HETATM 45 O O19 AQ9 . . . C 3 -28.332 10.366 -7.373 1 48.82 ? O19 AQ9 502 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 45 #