data_7YJ7 # _model_server_result.job_id 1p22Ojgq3Odgqwj3hX78mQ _model_server_result.datetime_utc '2024-11-24 12:38:19' _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 7yj7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 7YJ7 # _exptl.entry_id 7YJ7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 272.253 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NARINGENIN _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 7YJ7 _cell.length_a 65.426 _cell.length_b 72.294 _cell.length_c 82.61 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YJ7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 2 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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' 2_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C15 H12 O5' _chem_comp.formula_weight 272.253 _chem_comp.id NAR _chem_comp.mon_nstd_flag . _chem_comp.name NARINGENIN _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 NAR doub 237 n y C1 C6 NAR sing 238 n y C1 H11 NAR sing 239 n n C2 C3 NAR sing 240 n y C2 O4 NAR sing 241 n n C3 C4 NAR doub 242 n y C3 H31 NAR sing 243 n n C4 C5 NAR sing 244 n y C4 O5 NAR sing 245 n n C5 C6 NAR doub 246 n y C5 C7 NAR sing 247 n n C6 O1 NAR sing 248 n n C7 C8 NAR sing 249 n n C7 O2 NAR doub 250 n n C8 C9 NAR sing 251 n n C8 H81 NAR sing 252 n n C8 H82 NAR sing 253 n n C9 O1 NAR sing 254 n n C9 C10 NAR sing 255 n n C9 H9 NAR sing 256 n n C10 C11 NAR sing 257 n y C10 C15 NAR doub 258 n y C11 C12 NAR doub 259 n y C11 H111 NAR sing 260 n n C12 C13 NAR sing 261 n y C12 H121 NAR sing 262 n n C13 C14 NAR doub 263 n y C13 O3 NAR sing 264 n n C14 C15 NAR sing 265 n y C14 H141 NAR sing 266 n n C15 H151 NAR sing 267 n n O3 HO3 NAR sing 268 n n O4 H41 NAR sing 269 n n O5 H51 NAR sing 270 n n # _atom_sites.entry_id 7YJ7 _atom_sites.fract_transf_matrix[1][1] 0.015284 _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] 0.013832 _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] 0.012105 _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 NAR A 1 501 421 NAR NAR . C 3 HOH A 1 601 204 HOH HOH . C 3 HOH A 2 602 184 HOH HOH . C 3 HOH A 3 603 234 HOH HOH . C 3 HOH A 4 604 252 HOH HOH . C 3 HOH A 5 605 13 HOH HOH . C 3 HOH A 6 606 88 HOH HOH . C 3 HOH A 7 607 179 HOH HOH . C 3 HOH A 8 608 222 HOH HOH . C 3 HOH A 9 609 224 HOH HOH . C 3 HOH A 10 610 141 HOH HOH . C 3 HOH A 11 611 23 HOH HOH . C 3 HOH A 12 612 28 HOH HOH . C 3 HOH A 13 613 114 HOH HOH . C 3 HOH A 14 614 36 HOH HOH . C 3 HOH A 15 615 237 HOH HOH . C 3 HOH A 16 616 47 HOH HOH . C 3 HOH A 17 617 164 HOH HOH . C 3 HOH A 18 618 3 HOH HOH . C 3 HOH A 19 619 11 HOH HOH . C 3 HOH A 20 620 99 HOH HOH . C 3 HOH A 21 621 24 HOH HOH . C 3 HOH A 22 622 196 HOH HOH . C 3 HOH A 23 623 61 HOH HOH . C 3 HOH A 24 624 41 HOH HOH . C 3 HOH A 25 625 215 HOH HOH . C 3 HOH A 26 626 105 HOH HOH . C 3 HOH A 27 627 17 HOH HOH . C 3 HOH A 28 628 136 HOH HOH . C 3 HOH A 29 629 142 HOH HOH . C 3 HOH A 30 630 56 HOH HOH . C 3 HOH A 31 631 6 HOH HOH . C 3 HOH A 32 632 27 HOH HOH . C 3 HOH A 33 633 1 HOH HOH . C 3 HOH A 34 634 31 HOH HOH . C 3 HOH A 35 635 5 HOH HOH . C 3 HOH A 36 636 49 HOH HOH . C 3 HOH A 37 637 214 HOH HOH . C 3 HOH A 38 638 63 HOH HOH . C 3 HOH A 39 639 185 HOH HOH . C 3 HOH A 40 640 18 HOH HOH . C 3 HOH A 41 641 26 HOH HOH . C 3 HOH A 42 642 133 HOH HOH . C 3 HOH A 43 643 255 HOH HOH . C 3 HOH A 44 644 201 HOH HOH . C 3 HOH A 45 645 139 HOH HOH . C 3 HOH A 46 646 161 HOH HOH . C 3 HOH A 47 647 140 HOH HOH . C 3 HOH A 48 648 217 HOH HOH . C 3 HOH A 49 649 86 HOH HOH . C 3 HOH A 50 650 38 HOH HOH . C 3 HOH A 51 651 48 HOH HOH . C 3 HOH A 52 652 46 HOH HOH . C 3 HOH A 53 653 165 HOH HOH . C 3 HOH A 54 654 82 HOH HOH . C 3 HOH A 55 655 78 HOH HOH . C 3 HOH A 56 656 35 HOH HOH . C 3 HOH A 57 657 188 HOH HOH . C 3 HOH A 58 658 32 HOH HOH . C 3 HOH A 59 659 51 HOH HOH . C 3 HOH A 60 660 10 HOH HOH . C 3 HOH A 61 661 37 HOH HOH . C 3 HOH A 62 662 4 HOH HOH . C 3 HOH A 63 663 12 HOH HOH . C 3 HOH A 64 664 20 HOH HOH . C 3 HOH A 65 665 249 HOH HOH . C 3 HOH A 66 666 71 HOH HOH . C 3 HOH A 67 667 14 HOH HOH . C 3 HOH A 68 668 69 HOH HOH . C 3 HOH A 69 669 59 HOH HOH . C 3 HOH A 70 670 64 HOH HOH . C 3 HOH A 71 671 53 HOH HOH . C 3 HOH A 72 672 118 HOH HOH . C 3 HOH A 73 673 205 HOH HOH . C 3 HOH A 74 674 62 HOH HOH . C 3 HOH A 75 675 77 HOH HOH . C 3 HOH A 76 676 100 HOH HOH . C 3 HOH A 77 677 216 HOH HOH . C 3 HOH A 78 678 67 HOH HOH . C 3 HOH A 79 679 79 HOH HOH . C 3 HOH A 80 680 39 HOH HOH . C 3 HOH A 81 681 203 HOH HOH . C 3 HOH A 82 682 42 HOH HOH . C 3 HOH A 83 683 15 HOH HOH . C 3 HOH A 84 684 126 HOH HOH . C 3 HOH A 85 685 171 HOH HOH . C 3 HOH A 86 686 87 HOH HOH . C 3 HOH A 87 687 75 HOH HOH . C 3 HOH A 88 688 44 HOH HOH . C 3 HOH A 89 689 102 HOH HOH . C 3 HOH A 90 690 168 HOH HOH . C 3 HOH A 91 691 121 HOH HOH . C 3 HOH A 92 692 29 HOH HOH . C 3 HOH A 93 693 131 HOH HOH . C 3 HOH A 94 694 110 HOH HOH . C 3 HOH A 95 695 98 HOH HOH . C 3 HOH A 96 696 70 HOH HOH . C 3 HOH A 97 697 129 HOH HOH . C 3 HOH A 98 698 156 HOH HOH . C 3 HOH A 99 699 76 HOH HOH . C 3 HOH A 100 700 73 HOH HOH . C 3 HOH A 101 701 166 HOH HOH . C 3 HOH A 102 702 182 HOH HOH . C 3 HOH A 103 703 21 HOH HOH . C 3 HOH A 104 704 219 HOH HOH . C 3 HOH A 105 705 101 HOH HOH . C 3 HOH A 106 706 16 HOH HOH . C 3 HOH A 107 707 65 HOH HOH . C 3 HOH A 108 708 92 HOH HOH . C 3 HOH A 109 709 2 HOH HOH . C 3 HOH A 110 710 253 HOH HOH . C 3 HOH A 111 711 144 HOH HOH . C 3 HOH A 112 712 148 HOH HOH . C 3 HOH A 113 713 22 HOH HOH . C 3 HOH A 114 714 30 HOH HOH . C 3 HOH A 115 715 218 HOH HOH . C 3 HOH A 116 716 25 HOH HOH . C 3 HOH A 117 717 250 HOH HOH . C 3 HOH A 118 718 7 HOH HOH . C 3 HOH A 119 719 60 HOH HOH . C 3 HOH A 120 720 45 HOH HOH . C 3 HOH A 121 721 149 HOH HOH . C 3 HOH A 122 722 74 HOH HOH . C 3 HOH A 123 723 40 HOH HOH . C 3 HOH A 124 724 80 HOH HOH . C 3 HOH A 125 725 153 HOH HOH . C 3 HOH A 126 726 8 HOH HOH . C 3 HOH A 127 727 66 HOH HOH . C 3 HOH A 128 728 68 HOH HOH . C 3 HOH A 129 729 109 HOH HOH . C 3 HOH A 130 730 137 HOH HOH . C 3 HOH A 131 731 119 HOH HOH . C 3 HOH A 132 732 258 HOH HOH . C 3 HOH A 133 733 122 HOH HOH . C 3 HOH A 134 734 72 HOH HOH . C 3 HOH A 135 735 229 HOH HOH . C 3 HOH A 136 736 34 HOH HOH . C 3 HOH A 137 737 213 HOH HOH . C 3 HOH A 138 738 186 HOH HOH . C 3 HOH A 139 739 175 HOH HOH . C 3 HOH A 140 740 155 HOH HOH . C 3 HOH A 141 741 107 HOH HOH . C 3 HOH A 142 742 152 HOH HOH . C 3 HOH A 143 743 197 HOH HOH . C 3 HOH A 144 744 103 HOH HOH . C 3 HOH A 145 745 180 HOH HOH . C 3 HOH A 146 746 208 HOH HOH . C 3 HOH A 147 747 159 HOH HOH . C 3 HOH A 148 748 226 HOH HOH . C 3 HOH A 149 749 52 HOH HOH . C 3 HOH A 150 750 241 HOH HOH . C 3 HOH A 151 751 123 HOH HOH . C 3 HOH A 152 752 58 HOH HOH . C 3 HOH A 153 753 113 HOH HOH . C 3 HOH A 154 754 57 HOH HOH . C 3 HOH A 155 755 9 HOH HOH . C 3 HOH A 156 756 128 HOH HOH . C 3 HOH A 157 757 94 HOH HOH . C 3 HOH A 158 758 160 HOH HOH . C 3 HOH A 159 759 85 HOH HOH . C 3 HOH A 160 760 134 HOH HOH . C 3 HOH A 161 761 169 HOH HOH . C 3 HOH A 162 762 138 HOH HOH . C 3 HOH A 163 763 104 HOH HOH . C 3 HOH A 164 764 194 HOH HOH . C 3 HOH A 165 765 125 HOH HOH . C 3 HOH A 166 766 172 HOH HOH . C 3 HOH A 167 767 223 HOH HOH . C 3 HOH A 168 768 112 HOH HOH . C 3 HOH A 169 769 33 HOH HOH . C 3 HOH A 170 770 151 HOH HOH . C 3 HOH A 171 771 199 HOH HOH . C 3 HOH A 172 772 225 HOH HOH . C 3 HOH A 173 773 117 HOH HOH . C 3 HOH A 174 774 176 HOH HOH . C 3 HOH A 175 775 173 HOH HOH . C 3 HOH A 176 776 238 HOH HOH . C 3 HOH A 177 777 54 HOH HOH . C 3 HOH A 178 778 230 HOH HOH . C 3 HOH A 179 779 93 HOH HOH . C 3 HOH A 180 780 90 HOH HOH . C 3 HOH A 181 781 96 HOH HOH . C 3 HOH A 182 782 43 HOH HOH . C 3 HOH A 183 783 132 HOH HOH . C 3 HOH A 184 784 232 HOH HOH . C 3 HOH A 185 785 178 HOH HOH . C 3 HOH A 186 786 50 HOH HOH . C 3 HOH A 187 787 91 HOH HOH . C 3 HOH A 188 788 202 HOH HOH . C 3 HOH A 189 789 154 HOH HOH . C 3 HOH A 190 790 111 HOH HOH . C 3 HOH A 191 791 239 HOH HOH . C 3 HOH A 192 792 244 HOH HOH . C 3 HOH A 193 793 95 HOH HOH . C 3 HOH A 194 794 108 HOH HOH . C 3 HOH A 195 795 207 HOH HOH . C 3 HOH A 196 796 183 HOH HOH . C 3 HOH A 197 797 206 HOH HOH . C 3 HOH A 198 798 246 HOH HOH . C 3 HOH A 199 799 191 HOH HOH . C 3 HOH A 200 800 55 HOH HOH . C 3 HOH A 201 801 245 HOH HOH . C 3 HOH A 202 802 170 HOH HOH . C 3 HOH A 203 803 209 HOH HOH . C 3 HOH A 204 804 162 HOH HOH . C 3 HOH A 205 805 146 HOH HOH . C 3 HOH A 206 806 233 HOH HOH . C 3 HOH A 207 807 231 HOH HOH . C 3 HOH A 208 808 81 HOH HOH . C 3 HOH A 209 809 198 HOH HOH . C 3 HOH A 210 810 158 HOH HOH . C 3 HOH A 211 811 127 HOH HOH . C 3 HOH A 212 812 115 HOH HOH . C 3 HOH A 213 813 200 HOH HOH . C 3 HOH A 214 814 181 HOH HOH . C 3 HOH A 215 815 116 HOH HOH . C 3 HOH A 216 816 195 HOH HOH . C 3 HOH A 217 817 212 HOH HOH . C 3 HOH A 218 818 220 HOH HOH . C 3 HOH A 219 819 247 HOH HOH . C 3 HOH A 220 820 150 HOH HOH . C 3 HOH A 221 821 143 HOH HOH . C 3 HOH A 222 822 256 HOH HOH . C 3 HOH A 223 823 192 HOH HOH . C 3 HOH A 224 824 163 HOH HOH . C 3 HOH A 225 825 211 HOH HOH . C 3 HOH A 226 826 145 HOH HOH . C 3 HOH A 227 827 257 HOH HOH . C 3 HOH A 228 828 235 HOH HOH . C 3 HOH A 229 829 248 HOH HOH . C 3 HOH A 230 830 254 HOH HOH . C 3 HOH A 231 831 251 HOH HOH . C 3 HOH A 232 832 83 HOH HOH . C 3 HOH A 233 833 240 HOH HOH . C 3 HOH A 234 834 210 HOH HOH . C 3 HOH A 235 835 187 HOH HOH . C 3 HOH A 236 836 242 HOH HOH . C 3 HOH A 237 837 228 HOH HOH . C 3 HOH A 238 838 106 HOH HOH . C 3 HOH A 239 839 167 HOH HOH . C 3 HOH A 240 840 259 HOH HOH . C 3 HOH A 241 841 177 HOH HOH . C 3 HOH A 242 842 89 HOH HOH . C 3 HOH A 243 843 236 HOH HOH . C 3 HOH A 244 844 157 HOH HOH . C 3 HOH A 245 845 227 HOH HOH . C 3 HOH A 246 846 147 HOH HOH . C 3 HOH A 247 847 84 HOH HOH . C 3 HOH A 248 848 130 HOH HOH . C 3 HOH A 249 849 243 HOH HOH . C 3 HOH A 250 850 189 HOH HOH . C 3 HOH A 251 851 124 HOH HOH . C 3 HOH A 252 852 135 HOH HOH . C 3 HOH A 253 853 221 HOH HOH . C 3 HOH A 254 854 193 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 C1 NAR . . . B 2 -23.271 -12.398 4.497 1 25.6 ? C1 NAR 501 A 1 HETATM 2 C C2 NAR . . . B 2 -23.177 -12.823 3.184 1 32.9 ? C2 NAR 501 A 1 HETATM 3 C C3 NAR . . . B 2 -24.27 -12.817 2.317 1 33.41 ? C3 NAR 501 A 1 HETATM 4 C C4 NAR . . . B 2 -25.507 -12.375 2.783 1 31.92 ? C4 NAR 501 A 1 HETATM 5 C C5 NAR . . . B 2 -25.625 -11.923 4.169 1 27.33 ? C5 NAR 501 A 1 HETATM 6 C C6 NAR . . . B 2 -24.465 -11.964 5.027 1 31.03 ? C6 NAR 501 A 1 HETATM 7 C C7 NAR . . . B 2 -26.896 -11.5 4.752 1 30.65 ? C7 NAR 501 A 1 HETATM 8 C C8 NAR . . . B 2 -26.999 -11.113 6.204 1 27.99 ? C8 NAR 501 A 1 HETATM 9 C C9 NAR . . . B 2 -25.643 -10.719 6.722 1 31.13 ? C9 NAR 501 A 1 HETATM 10 O O1 NAR . . . B 2 -24.598 -11.554 6.299 1 28.25 ? O1 NAR 501 A 1 HETATM 11 O O2 NAR . . . B 2 -27.855 -11.594 4.092 1 33.15 ? O2 NAR 501 A 1 HETATM 12 C C10 NAR . . . B 2 -25.572 -10.472 8.17 1 28.34 ? C10 NAR 501 A 1 HETATM 13 C C11 NAR . . . B 2 -25.047 -11.41 9.037 1 26.21 ? C11 NAR 501 A 1 HETATM 14 C C12 NAR . . . B 2 -24.973 -11.091 10.37 1 24.24 ? C12 NAR 501 A 1 HETATM 15 C C13 NAR . . . B 2 -25.415 -9.873 10.819 1 26.22 ? C13 NAR 501 A 1 HETATM 16 C C14 NAR . . . B 2 -25.917 -8.94 9.949 1 22.27 ? C14 NAR 501 A 1 HETATM 17 C C15 NAR . . . B 2 -25.991 -9.243 8.622 1 25.89 ? C15 NAR 501 A 1 HETATM 18 O O3 NAR . . . B 2 -25.326 -9.567 12.102 1 27.02 ? O3 NAR 501 A 1 HETATM 19 O O4 NAR . . . B 2 -22.003 -13.233 2.733 1 33.19 ? O4 NAR 501 A 1 HETATM 20 O O5 NAR . . . B 2 -26.593 -12.347 2.012 1 33.64 ? O5 NAR 501 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 20 #