data_7YFK # _model_server_result.job_id ZMcAi6G3OxKKTRY8SQJKLA _model_server_result.datetime_utc '2024-11-26 00:06:59' _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 7yfk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 7YFK # _exptl.entry_id 7YFK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 514.564 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description Nomilin _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 7YFK _cell.length_a 84.986 _cell.length_b 90.163 _cell.length_c 106.391 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YFK _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # _chem_comp.formula 'C28 H34 O9' _chem_comp.formula_weight 514.564 _chem_comp.id G3L _chem_comp.mon_nstd_flag . _chem_comp.name Nomilin _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '[(1R,2R,4S,7S,8S,11R,12R,13S,18R)-7-(furan-3-yl)-1,8,12,17,17-pentamethyl-5,15,20-trioxo-3,6,16-trioxapentacyclo[9.9.0.02,4.02,8.012,18]icosan-13-yl] acetate' # 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 C22 C17 G3L sing 83 n n C21 C17 G3L sing 84 n n C17 O4 G3L sing 85 n n C17 C9 G3L sing 86 n n O4 C23 G3L sing 87 n n C13 C9 G3L sing 88 n n C13 C10 G3L sing 89 n n O8 C23 G3L doub 90 n n C23 C20 G3L sing 91 n n C9 C6 G3L sing 92 n n O3 C10 G3L doub 93 n n C10 C2 G3L sing 94 n n C20 C14 G3L sing 95 n n C18 C6 G3L sing 96 n n C6 C14 G3L sing 97 n n C6 C4 G3L sing 98 n n C14 O5 G3L sing 99 n n C12 C2 G3L sing 100 n n C2 C4 G3L sing 101 n n C2 C1 G3L sing 102 n n O5 C26 G3L sing 103 n n C28 C26 G3L sing 104 n n C4 C8 G3L sing 105 n n C26 O9 G3L doub 106 n n C5 C1 G3L sing 107 n n C5 O1 G3L sing 108 n n C5 C16 G3L sing 109 n n C1 O1 G3L sing 110 n n C1 C3 G3L sing 111 n n O6 C16 G3L doub 112 n n C15 C3 G3L sing 113 n n C8 C7 G3L sing 114 n n C16 O2 G3L sing 115 n n C3 C7 G3L sing 116 n n C3 C11 G3L sing 117 n n O2 C11 G3L sing 118 n n C11 C19 G3L sing 119 n n C19 C24 G3L sing 120 n y C19 C25 G3L doub 121 n y C24 C27 G3L doub 122 n y C25 O7 G3L sing 123 n y C27 O7 G3L sing 124 n y C4 H1 G3L sing 125 n n C5 H2 G3L sing 126 n n C7 H3 G3L sing 127 n n C7 H4 G3L sing 128 n n C8 H5 G3L sing 129 n n C8 H6 G3L sing 130 n n C9 H7 G3L sing 131 n n C11 H8 G3L sing 132 n n C12 H9 G3L sing 133 n n C12 H10 G3L sing 134 n n C12 H11 G3L sing 135 n n C13 H12 G3L sing 136 n n C13 H13 G3L sing 137 n n C14 H14 G3L sing 138 n n C15 H15 G3L sing 139 n n C15 H16 G3L sing 140 n n C15 H17 G3L sing 141 n n C18 H18 G3L sing 142 n n C18 H19 G3L sing 143 n n C18 H20 G3L sing 144 n n C20 H21 G3L sing 145 n n C20 H22 G3L sing 146 n n C21 H23 G3L sing 147 n n C21 H24 G3L sing 148 n n C21 H25 G3L sing 149 n n C22 H26 G3L sing 150 n n C22 H27 G3L sing 151 n n C22 H28 G3L sing 152 n n C24 H29 G3L sing 153 n n C25 H30 G3L sing 154 n n C27 H31 G3L sing 155 n n C28 H32 G3L sing 156 n n C28 H33 G3L sing 157 n n C28 H34 G3L sing 158 n n # _atom_sites.entry_id 7YFK _atom_sites.fract_transf_matrix[1][1] 0.011767 _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] 0.011091 _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] 0.009399 _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 C 2 G3L A 1 601 601 G3L UNL . D 2 G3L B 1 601 601 G3L UNL . E 3 HOH A 1 701 13 HOH HOH . E 3 HOH A 2 702 205 HOH HOH . E 3 HOH A 3 703 70 HOH HOH . E 3 HOH A 4 704 59 HOH HOH . E 3 HOH A 5 705 199 HOH HOH . E 3 HOH A 6 706 148 HOH HOH . E 3 HOH A 7 707 40 HOH HOH . E 3 HOH A 8 708 51 HOH HOH . E 3 HOH A 9 709 101 HOH HOH . E 3 HOH A 10 710 115 HOH HOH . E 3 HOH A 11 711 134 HOH HOH . E 3 HOH A 12 712 76 HOH HOH . E 3 HOH A 13 713 23 HOH HOH . E 3 HOH A 14 714 185 HOH HOH . E 3 HOH A 15 715 66 HOH HOH . E 3 HOH A 16 716 95 HOH HOH . E 3 HOH A 17 717 113 HOH HOH . E 3 HOH A 18 718 47 HOH HOH . E 3 HOH A 19 719 10 HOH HOH . E 3 HOH A 20 720 68 HOH HOH . E 3 HOH A 21 721 190 HOH HOH . E 3 HOH A 22 722 28 HOH HOH . E 3 HOH A 23 723 29 HOH HOH . E 3 HOH A 24 724 139 HOH HOH . E 3 HOH A 25 725 168 HOH HOH . E 3 HOH A 26 726 99 HOH HOH . E 3 HOH A 27 727 2 HOH HOH . E 3 HOH A 28 728 127 HOH HOH . E 3 HOH A 29 729 58 HOH HOH . E 3 HOH A 30 730 8 HOH HOH . E 3 HOH A 31 731 111 HOH HOH . E 3 HOH A 32 732 27 HOH HOH . E 3 HOH A 33 733 136 HOH HOH . E 3 HOH A 34 734 16 HOH HOH . E 3 HOH A 35 735 79 HOH HOH . E 3 HOH A 36 736 1 HOH HOH . E 3 HOH A 37 737 123 HOH HOH . E 3 HOH A 38 738 96 HOH HOH . E 3 HOH A 39 739 65 HOH HOH . E 3 HOH A 40 740 162 HOH HOH . E 3 HOH A 41 741 45 HOH HOH . E 3 HOH A 42 742 97 HOH HOH . E 3 HOH A 43 743 60 HOH HOH . E 3 HOH A 44 744 54 HOH HOH . E 3 HOH A 45 745 34 HOH HOH . E 3 HOH A 46 746 38 HOH HOH . E 3 HOH A 47 747 19 HOH HOH . E 3 HOH A 48 748 193 HOH HOH . E 3 HOH A 49 749 56 HOH HOH . E 3 HOH A 50 750 14 HOH HOH . E 3 HOH A 51 751 178 HOH HOH . E 3 HOH A 52 752 74 HOH HOH . E 3 HOH A 53 753 88 HOH HOH . E 3 HOH A 54 754 103 HOH HOH . E 3 HOH A 55 755 73 HOH HOH . E 3 HOH A 56 756 130 HOH HOH . E 3 HOH A 57 757 106 HOH HOH . E 3 HOH A 58 758 114 HOH HOH . E 3 HOH A 59 759 179 HOH HOH . E 3 HOH A 60 760 9 HOH HOH . E 3 HOH A 61 761 89 HOH HOH . E 3 HOH A 62 762 25 HOH HOH . E 3 HOH A 63 763 43 HOH HOH . E 3 HOH A 64 764 105 HOH HOH . E 3 HOH A 65 765 93 HOH HOH . E 3 HOH A 66 766 32 HOH HOH . E 3 HOH A 67 767 208 HOH HOH . E 3 HOH A 68 768 204 HOH HOH . E 3 HOH A 69 769 50 HOH HOH . E 3 HOH A 70 770 196 HOH HOH . E 3 HOH A 71 771 24 HOH HOH . E 3 HOH A 72 772 81 HOH HOH . E 3 HOH A 73 773 92 HOH HOH . E 3 HOH A 74 774 11 HOH HOH . E 3 HOH A 75 775 201 HOH HOH . E 3 HOH A 76 776 100 HOH HOH . E 3 HOH A 77 777 90 HOH HOH . E 3 HOH A 78 778 202 HOH HOH . E 3 HOH A 79 779 156 HOH HOH . E 3 HOH A 80 780 165 HOH HOH . E 3 HOH A 81 781 87 HOH HOH . E 3 HOH A 82 782 46 HOH HOH . E 3 HOH A 83 783 57 HOH HOH . E 3 HOH A 84 784 110 HOH HOH . E 3 HOH A 85 785 155 HOH HOH . E 3 HOH A 86 786 108 HOH HOH . E 3 HOH A 87 787 84 HOH HOH . E 3 HOH A 88 788 80 HOH HOH . E 3 HOH A 89 789 207 HOH HOH . E 3 HOH A 90 790 86 HOH HOH . E 3 HOH A 91 791 195 HOH HOH . E 3 HOH A 92 792 161 HOH HOH . E 3 HOH A 93 793 176 HOH HOH . F 3 HOH B 1 701 216 HOH HOH . F 3 HOH B 2 702 144 HOH HOH . F 3 HOH B 3 703 22 HOH HOH . F 3 HOH B 4 704 69 HOH HOH . F 3 HOH B 5 705 39 HOH HOH . F 3 HOH B 6 706 6 HOH HOH . F 3 HOH B 7 707 44 HOH HOH . F 3 HOH B 8 708 167 HOH HOH . F 3 HOH B 9 709 41 HOH HOH . F 3 HOH B 10 710 117 HOH HOH . F 3 HOH B 11 711 26 HOH HOH . F 3 HOH B 12 712 132 HOH HOH . F 3 HOH B 13 713 12 HOH HOH . F 3 HOH B 14 714 4 HOH HOH . F 3 HOH B 15 715 5 HOH HOH . F 3 HOH B 16 716 150 HOH HOH . F 3 HOH B 17 717 35 HOH HOH . F 3 HOH B 18 718 135 HOH HOH . F 3 HOH B 19 719 112 HOH HOH . F 3 HOH B 20 720 109 HOH HOH . F 3 HOH B 21 721 78 HOH HOH . F 3 HOH B 22 722 3 HOH HOH . F 3 HOH B 23 723 15 HOH HOH . F 3 HOH B 24 724 17 HOH HOH . F 3 HOH B 25 725 94 HOH HOH . F 3 HOH B 26 726 18 HOH HOH . F 3 HOH B 27 727 107 HOH HOH . F 3 HOH B 28 728 129 HOH HOH . F 3 HOH B 29 729 116 HOH HOH . F 3 HOH B 30 730 75 HOH HOH . F 3 HOH B 31 731 61 HOH HOH . F 3 HOH B 32 732 184 HOH HOH . F 3 HOH B 33 733 33 HOH HOH . F 3 HOH B 34 734 125 HOH HOH . F 3 HOH B 35 735 21 HOH HOH . F 3 HOH B 36 736 37 HOH HOH . F 3 HOH B 37 737 72 HOH HOH . F 3 HOH B 38 738 36 HOH HOH . F 3 HOH B 39 739 203 HOH HOH . F 3 HOH B 40 740 67 HOH HOH . F 3 HOH B 41 741 122 HOH HOH . F 3 HOH B 42 742 172 HOH HOH . F 3 HOH B 43 743 102 HOH HOH . F 3 HOH B 44 744 30 HOH HOH . F 3 HOH B 45 745 166 HOH HOH . F 3 HOH B 46 746 7 HOH HOH . F 3 HOH B 47 747 82 HOH HOH . F 3 HOH B 48 748 206 HOH HOH . F 3 HOH B 49 749 104 HOH HOH . F 3 HOH B 50 750 31 HOH HOH . F 3 HOH B 51 751 91 HOH HOH . F 3 HOH B 52 752 119 HOH HOH . F 3 HOH B 53 753 153 HOH HOH . F 3 HOH B 54 754 42 HOH HOH . F 3 HOH B 55 755 49 HOH HOH . F 3 HOH B 56 756 220 HOH HOH . F 3 HOH B 57 757 187 HOH HOH . F 3 HOH B 58 758 133 HOH HOH . F 3 HOH B 59 759 147 HOH HOH . F 3 HOH B 60 760 77 HOH HOH . F 3 HOH B 61 761 171 HOH HOH . F 3 HOH B 62 762 128 HOH HOH . F 3 HOH B 63 763 175 HOH HOH . F 3 HOH B 64 764 64 HOH HOH . F 3 HOH B 65 765 160 HOH HOH . F 3 HOH B 66 766 55 HOH HOH . F 3 HOH B 67 767 118 HOH HOH . F 3 HOH B 68 768 62 HOH HOH . F 3 HOH B 69 769 194 HOH HOH . F 3 HOH B 70 770 213 HOH HOH . F 3 HOH B 71 771 140 HOH HOH . F 3 HOH B 72 772 169 HOH HOH . F 3 HOH B 73 773 198 HOH HOH . F 3 HOH B 74 774 212 HOH HOH . F 3 HOH B 75 775 120 HOH HOH . F 3 HOH B 76 776 83 HOH HOH . F 3 HOH B 77 777 71 HOH HOH . F 3 HOH B 78 778 20 HOH HOH . F 3 HOH B 79 779 48 HOH HOH . F 3 HOH B 80 780 159 HOH HOH . F 3 HOH B 81 781 121 HOH HOH . F 3 HOH B 82 782 157 HOH HOH . F 3 HOH B 83 783 52 HOH HOH . F 3 HOH B 84 784 181 HOH HOH . F 3 HOH B 85 785 197 HOH HOH . F 3 HOH B 86 786 124 HOH HOH . F 3 HOH B 87 787 85 HOH HOH . F 3 HOH B 88 788 63 HOH HOH . F 3 HOH B 89 789 173 HOH HOH . F 3 HOH B 90 790 126 HOH HOH . F 3 HOH B 91 791 98 HOH HOH . F 3 HOH B 92 792 152 HOH HOH . F 3 HOH B 93 793 158 HOH HOH . F 3 HOH B 94 794 200 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 O O1 G3L . . . C 2 -29.949 14.719 -22.412 0.77 51.04 ? O1 G3L 601 A 1 HETATM 2 O O2 G3L . . . C 2 -32.603 13.855 -21.127 0.77 55.88 ? O2 G3L 601 A 1 HETATM 3 O O3 G3L . . . C 2 -31.437 13.649 -25.646 0.77 54.35 ? O3 G3L 601 A 1 HETATM 4 O O4 G3L . . . C 2 -27.916 9.783 -28 0.77 62.23 ? O4 G3L 601 A 1 HETATM 5 O O5 G3L . . . C 2 -28.868 9.26 -25.115 0.77 68.51 ? O5 G3L 601 A 1 HETATM 6 O O6 G3L . . . C 2 -33.295 15.592 -22.396 0.77 52.3 ? O6 G3L 601 A 1 HETATM 7 O O7 G3L . . . C 2 -32.083 10.36 -18.179 0.77 72.83 ? O7 G3L 601 A 1 HETATM 8 O O8 G3L . . . C 2 -27.109 7.781 -27.425 0.77 70.78 ? O8 G3L 601 A 1 HETATM 9 O O9 G3L . . . C 2 -27.944 7.426 -24.139 0.77 84.99 ? O9 G3L 601 A 1 HETATM 10 C C1 G3L . . . C 2 -30.425 13.501 -22.912 0.77 53.77 ? C1 G3L 601 A 1 HETATM 11 C C2 G3L . . . C 2 -29.564 13.295 -24.199 0.77 53.09 ? C2 G3L 601 A 1 HETATM 12 C C3 G3L . . . C 2 -30.93 12.317 -22.035 0.77 58.68 ? C3 G3L 601 A 1 HETATM 13 C C4 G3L . . . C 2 -28.996 11.9 -24.11 0.77 58.07 ? C4 G3L 601 A 1 HETATM 14 C C5 G3L . . . C 2 -31.259 14.689 -22.904 0.77 53.67 ? C5 G3L 601 A 1 HETATM 15 C C6 G3L . . . C 2 -28.003 11.442 -25.258 0.77 60.9 ? C6 G3L 601 A 1 HETATM 16 C C7 G3L . . . C 2 -29.688 11.394 -21.735 0.77 59.21 ? C7 G3L 601 A 1 HETATM 17 C C8 G3L . . . C 2 -28.47 11.579 -22.738 0.77 53.71 ? C8 G3L 601 A 1 HETATM 18 C C9 G3L . . . C 2 -28.825 11.555 -26.58 0.77 55.95 ? C9 G3L 601 A 1 HETATM 19 C C10 G3L . . . C 2 -30.297 13.344 -25.531 0.77 55.39 ? C10 G3L 601 A 1 HETATM 20 C C11 G3L . . . C 2 -31.512 12.945 -20.771 0.77 58.42 ? C11 G3L 601 A 1 HETATM 21 C C12 G3L . . . C 2 -28.548 14.472 -24.238 0.77 46.33 ? C12 G3L 601 A 1 HETATM 22 C C13 G3L . . . C 2 -29.463 12.956 -26.772 0.77 54.51 ? C13 G3L 601 A 1 HETATM 23 C C14 G3L . . . C 2 -27.694 9.999 -24.944 0.77 62.49 ? C14 G3L 601 A 1 HETATM 24 C C15 G3L . . . C 2 -32.033 11.517 -22.796 0.77 56.47 ? C15 G3L 601 A 1 HETATM 25 C C16 G3L . . . C 2 -32.465 14.761 -22.166 0.77 57.11 ? C16 G3L 601 A 1 HETATM 26 C C17 G3L . . . C 2 -28.19 11.145 -27.932 0.77 56.38 ? C17 G3L 601 A 1 HETATM 27 C C18 G3L . . . C 2 -26.595 12.139 -25.181 0.77 58.76 ? C18 G3L 601 A 1 HETATM 28 C C19 G3L . . . C 2 -32.022 11.912 -19.78 0.77 57.87 ? C19 G3L 601 A 1 HETATM 29 C C20 G3L . . . C 2 -26.593 9.516 -25.91 0.77 66.07 ? C20 G3L 601 A 1 HETATM 30 C C21 G3L . . . C 2 -26.961 11.983 -28.401 0.77 55.46 ? C21 G3L 601 A 1 HETATM 31 C C22 G3L . . . C 2 -29.296 11.402 -28.988 0.77 49.37 ? C22 G3L 601 A 1 HETATM 32 C C23 G3L . . . C 2 -27.204 8.945 -27.175 0.77 68.3 ? C23 G3L 601 A 1 HETATM 33 C C24 G3L . . . C 2 -33.322 11.575 -19.595 0.77 52.74 ? C24 G3L 601 A 1 HETATM 34 C C25 G3L . . . C 2 -31.244 11.176 -18.906 0.77 66.27 ? C25 G3L 601 A 1 HETATM 35 C C26 G3L . . . C 2 -28.767 7.847 -24.896 0.77 79.64 ? C26 G3L 601 A 1 HETATM 36 C C27 G3L . . . C 2 -33.372 10.613 -18.608 0.77 62.39 ? C27 G3L 601 A 1 HETATM 37 C C28 G3L . . . C 2 -29.71 6.887 -25.676 0.77 79.77 ? C28 G3L 601 A 1 # _model_server_stats.io_time_ms 313 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 37 #