data_6QRN # _model_server_result.job_id WheoR2FrBzflqKA_trGm9g _model_server_result.datetime_utc '2025-01-02 23:28:10' _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 6qrn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 6QRN # _exptl.entry_id 6QRN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 150.13 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description beta-D-ribopyranose _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 120 _cell.entry_id 6QRN _cell.length_a 49.139 _cell.length_b 49.139 _cell.length_c 261.025 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6QRN _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _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' 10_555 -y,-x,-z+1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 0 0 43.504167 # _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 'C5 H10 O5' _chem_comp.formula_weight 150.13 _chem_comp.id RIP _chem_comp.mon_nstd_flag . _chem_comp.name beta-D-ribopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms 'beta-D-ribose;D-ribose;ribose;RIBOSE(PYRANOSE FORM)' # 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 RIP sing 277 n n C1 O1 RIP sing 278 n n C1 O5 RIP sing 279 n n C1 H1 RIP sing 280 n n C2 C3 RIP sing 281 n n C2 O2 RIP sing 282 n n C2 H2 RIP sing 283 n n C3 C4 RIP sing 284 n n C3 O3 RIP sing 285 n n C3 H3 RIP sing 286 n n C4 C5 RIP sing 287 n n C4 O4 RIP sing 288 n n C4 H4 RIP sing 289 n n C5 O5 RIP sing 290 n n C5 H51 RIP sing 291 n n C5 H52 RIP sing 292 n n O1 HO1 RIP sing 293 n n O2 HO2 RIP sing 294 n n O3 HO3 RIP sing 295 n n O4 HO4 RIP sing 296 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version RIP DRibpb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 RIP b-D-ribopyranose 'COMMON NAME' GMML 1 RIP b-D-Ribp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 RIP Rib 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 6QRN _atom_sites.fract_transf_matrix[1][1] 0.02035 _atom_sites.fract_transf_matrix[1][2] 0.011749 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023499 _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] 0.003831 _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 RIP A 1 500 500 RIP RIP . C 3 HOH A 1 601 186 HOH HOH . C 3 HOH A 2 602 134 HOH HOH . C 3 HOH A 3 603 37 HOH HOH . C 3 HOH A 4 604 111 HOH HOH . C 3 HOH A 5 605 198 HOH HOH . C 3 HOH A 6 606 116 HOH HOH . C 3 HOH A 7 607 109 HOH HOH . C 3 HOH A 8 608 102 HOH HOH . C 3 HOH A 9 609 114 HOH HOH . C 3 HOH A 10 610 26 HOH HOH . C 3 HOH A 11 611 162 HOH HOH . C 3 HOH A 12 612 118 HOH HOH . C 3 HOH A 13 613 193 HOH HOH . C 3 HOH A 14 614 190 HOH HOH . C 3 HOH A 15 615 117 HOH HOH . C 3 HOH A 16 616 122 HOH HOH . C 3 HOH A 17 617 160 HOH HOH . C 3 HOH A 18 618 234 HOH HOH . C 3 HOH A 19 619 196 HOH HOH . C 3 HOH A 20 620 185 HOH HOH . C 3 HOH A 21 621 265 HOH HOH . C 3 HOH A 22 622 130 HOH HOH . C 3 HOH A 23 623 272 HOH HOH . C 3 HOH A 24 624 194 HOH HOH . C 3 HOH A 25 625 184 HOH HOH . C 3 HOH A 26 626 197 HOH HOH . C 3 HOH A 27 627 163 HOH HOH . C 3 HOH A 28 628 50 HOH HOH . C 3 HOH A 29 629 28 HOH HOH . C 3 HOH A 30 630 92 HOH HOH . C 3 HOH A 31 631 20 HOH HOH . C 3 HOH A 32 632 123 HOH HOH . C 3 HOH A 33 633 251 HOH HOH . C 3 HOH A 34 634 149 HOH HOH . C 3 HOH A 35 635 22 HOH HOH . C 3 HOH A 36 636 144 HOH HOH . C 3 HOH A 37 637 140 HOH HOH . C 3 HOH A 38 638 48 HOH HOH . C 3 HOH A 39 639 173 HOH HOH . C 3 HOH A 40 640 164 HOH HOH . C 3 HOH A 41 641 167 HOH HOH . C 3 HOH A 42 642 143 HOH HOH . C 3 HOH A 43 643 10 HOH HOH . C 3 HOH A 44 644 95 HOH HOH . C 3 HOH A 45 645 16 HOH HOH . C 3 HOH A 46 646 128 HOH HOH . C 3 HOH A 47 647 290 HOH HOH . C 3 HOH A 48 648 177 HOH HOH . C 3 HOH A 49 649 2 HOH HOH . C 3 HOH A 50 650 139 HOH HOH . C 3 HOH A 51 651 276 HOH HOH . C 3 HOH A 52 652 218 HOH HOH . C 3 HOH A 53 653 168 HOH HOH . C 3 HOH A 54 654 3 HOH HOH . C 3 HOH A 55 655 213 HOH HOH . C 3 HOH A 56 656 151 HOH HOH . C 3 HOH A 57 657 231 HOH HOH . C 3 HOH A 58 658 90 HOH HOH . C 3 HOH A 59 659 23 HOH HOH . C 3 HOH A 60 660 115 HOH HOH . C 3 HOH A 61 661 12 HOH HOH . C 3 HOH A 62 662 91 HOH HOH . C 3 HOH A 63 663 103 HOH HOH . C 3 HOH A 64 664 172 HOH HOH . C 3 HOH A 65 665 30 HOH HOH . C 3 HOH A 66 666 34 HOH HOH . C 3 HOH A 67 667 106 HOH HOH . C 3 HOH A 68 668 147 HOH HOH . C 3 HOH A 69 669 165 HOH HOH . C 3 HOH A 70 670 73 HOH HOH . C 3 HOH A 71 671 286 HOH HOH . C 3 HOH A 72 672 18 HOH HOH . C 3 HOH A 73 673 38 HOH HOH . C 3 HOH A 74 674 42 HOH HOH . C 3 HOH A 75 675 104 HOH HOH . C 3 HOH A 76 676 289 HOH HOH . C 3 HOH A 77 677 113 HOH HOH . C 3 HOH A 78 678 252 HOH HOH . C 3 HOH A 79 679 32 HOH HOH . C 3 HOH A 80 680 35 HOH HOH . C 3 HOH A 81 681 59 HOH HOH . C 3 HOH A 82 682 175 HOH HOH . C 3 HOH A 83 683 80 HOH HOH . C 3 HOH A 84 684 240 HOH HOH . C 3 HOH A 85 685 264 HOH HOH . C 3 HOH A 86 686 138 HOH HOH . C 3 HOH A 87 687 202 HOH HOH . C 3 HOH A 88 688 270 HOH HOH . C 3 HOH A 89 689 155 HOH HOH . C 3 HOH A 90 690 58 HOH HOH . C 3 HOH A 91 691 275 HOH HOH . C 3 HOH A 92 692 225 HOH HOH . C 3 HOH A 93 693 107 HOH HOH . C 3 HOH A 94 694 156 HOH HOH . C 3 HOH A 95 695 150 HOH HOH . C 3 HOH A 96 696 98 HOH HOH . C 3 HOH A 97 697 227 HOH HOH . C 3 HOH A 98 698 135 HOH HOH . C 3 HOH A 99 699 17 HOH HOH . C 3 HOH A 100 700 110 HOH HOH . C 3 HOH A 101 701 112 HOH HOH . C 3 HOH A 102 702 152 HOH HOH . C 3 HOH A 103 703 142 HOH HOH . C 3 HOH A 104 704 125 HOH HOH . C 3 HOH A 105 705 180 HOH HOH . C 3 HOH A 106 706 146 HOH HOH . C 3 HOH A 107 707 182 HOH HOH . C 3 HOH A 108 708 41 HOH HOH . C 3 HOH A 109 709 158 HOH HOH . C 3 HOH A 110 710 255 HOH HOH . C 3 HOH A 111 711 179 HOH HOH . C 3 HOH A 112 712 120 HOH HOH . C 3 HOH A 113 713 108 HOH HOH . C 3 HOH A 114 714 127 HOH HOH . C 3 HOH A 115 715 277 HOH HOH . C 3 HOH A 116 716 77 HOH HOH . C 3 HOH A 117 717 267 HOH HOH . C 3 HOH A 118 718 126 HOH HOH . C 3 HOH A 119 719 187 HOH HOH . C 3 HOH A 120 720 281 HOH HOH . C 3 HOH A 121 721 230 HOH HOH . C 3 HOH A 122 722 137 HOH HOH . C 3 HOH A 123 723 214 HOH HOH . C 3 HOH A 124 724 13 HOH HOH . C 3 HOH A 125 725 141 HOH HOH . C 3 HOH A 126 726 121 HOH HOH . C 3 HOH A 127 727 245 HOH HOH . C 3 HOH A 128 728 224 HOH HOH . C 3 HOH A 129 729 145 HOH HOH . C 3 HOH A 130 730 63 HOH HOH . C 3 HOH A 131 731 44 HOH HOH . C 3 HOH A 132 732 129 HOH HOH . C 3 HOH A 133 733 33 HOH HOH . C 3 HOH A 134 734 19 HOH HOH . C 3 HOH A 135 735 178 HOH HOH . C 3 HOH A 136 736 133 HOH HOH . C 3 HOH A 137 737 14 HOH HOH . C 3 HOH A 138 738 176 HOH HOH . C 3 HOH A 139 739 119 HOH HOH . C 3 HOH A 140 740 46 HOH HOH . C 3 HOH A 141 741 188 HOH HOH . C 3 HOH A 142 742 153 HOH HOH . C 3 HOH A 143 743 101 HOH HOH . C 3 HOH A 144 744 131 HOH HOH . C 3 HOH A 145 745 171 HOH HOH . C 3 HOH A 146 746 148 HOH HOH . C 3 HOH A 147 747 254 HOH HOH . C 3 HOH A 148 748 154 HOH HOH . C 3 HOH A 149 749 260 HOH HOH . C 3 HOH A 150 750 6 HOH HOH . C 3 HOH A 151 751 7 HOH HOH . C 3 HOH A 152 752 243 HOH HOH . C 3 HOH A 153 753 132 HOH HOH . C 3 HOH A 154 754 84 HOH HOH . C 3 HOH A 155 755 88 HOH HOH . C 3 HOH A 156 756 159 HOH HOH . C 3 HOH A 157 757 183 HOH HOH . C 3 HOH A 158 758 157 HOH HOH . C 3 HOH A 159 759 136 HOH HOH . C 3 HOH A 160 760 53 HOH HOH . C 3 HOH A 161 761 169 HOH HOH . C 3 HOH A 162 762 105 HOH HOH . C 3 HOH A 163 763 268 HOH HOH . C 3 HOH A 164 764 219 HOH HOH . C 3 HOH A 165 765 93 HOH HOH . C 3 HOH A 166 766 210 HOH HOH . C 3 HOH A 167 767 201 HOH HOH . C 3 HOH A 168 768 124 HOH HOH . C 3 HOH A 169 769 61 HOH HOH . C 3 HOH A 170 770 229 HOH HOH . C 3 HOH A 171 771 250 HOH HOH . C 3 HOH A 172 772 207 HOH HOH . C 3 HOH A 173 773 288 HOH HOH . C 3 HOH A 174 774 205 HOH HOH . C 3 HOH A 175 775 65 HOH HOH . C 3 HOH A 176 776 217 HOH HOH . C 3 HOH A 177 777 21 HOH HOH . C 3 HOH A 178 778 96 HOH HOH . C 3 HOH A 179 779 40 HOH HOH . C 3 HOH A 180 780 206 HOH HOH . C 3 HOH A 181 781 221 HOH HOH . C 3 HOH A 182 782 70 HOH HOH . C 3 HOH A 183 783 259 HOH HOH . C 3 HOH A 184 784 174 HOH HOH . C 3 HOH A 185 785 199 HOH HOH . C 3 HOH A 186 786 170 HOH HOH . C 3 HOH A 187 787 29 HOH HOH . C 3 HOH A 188 788 56 HOH HOH . C 3 HOH A 189 789 209 HOH HOH . C 3 HOH A 190 790 266 HOH HOH . C 3 HOH A 191 791 200 HOH HOH . C 3 HOH A 192 792 256 HOH HOH . C 3 HOH A 193 793 258 HOH HOH . C 3 HOH A 194 794 79 HOH HOH . C 3 HOH A 195 795 51 HOH HOH . C 3 HOH A 196 796 253 HOH HOH . C 3 HOH A 197 797 215 HOH HOH . C 3 HOH A 198 798 76 HOH HOH . C 3 HOH A 199 799 257 HOH HOH . C 3 HOH A 200 800 283 HOH HOH . C 3 HOH A 201 801 280 HOH HOH . C 3 HOH A 202 802 71 HOH HOH . C 3 HOH A 203 803 5 HOH HOH . C 3 HOH A 204 804 36 HOH HOH . C 3 HOH A 205 805 66 HOH HOH . C 3 HOH A 206 806 284 HOH HOH . C 3 HOH A 207 807 55 HOH HOH . C 3 HOH A 208 808 68 HOH HOH . C 3 HOH A 209 809 4 HOH HOH . C 3 HOH A 210 810 82 HOH HOH . C 3 HOH A 211 811 269 HOH HOH . C 3 HOH A 212 812 241 HOH HOH . C 3 HOH A 213 813 83 HOH HOH . C 3 HOH A 214 814 247 HOH HOH . C 3 HOH A 215 815 49 HOH HOH . C 3 HOH A 216 816 244 HOH HOH . C 3 HOH A 217 817 192 HOH HOH . C 3 HOH A 218 818 64 HOH HOH . C 3 HOH A 219 819 212 HOH HOH . C 3 HOH A 220 820 261 HOH HOH . C 3 HOH A 221 821 78 HOH HOH . C 3 HOH A 222 822 282 HOH HOH . C 3 HOH A 223 823 195 HOH HOH . C 3 HOH A 224 824 31 HOH HOH . C 3 HOH A 225 825 181 HOH HOH . C 3 HOH A 226 826 238 HOH HOH . C 3 HOH A 227 827 233 HOH HOH . C 3 HOH A 228 828 239 HOH HOH . C 3 HOH A 229 829 72 HOH HOH . C 3 HOH A 230 830 204 HOH HOH . C 3 HOH A 231 831 236 HOH HOH . C 3 HOH A 232 832 166 HOH HOH . C 3 HOH A 233 833 69 HOH HOH . C 3 HOH A 234 834 285 HOH HOH . C 3 HOH A 235 835 208 HOH HOH . C 3 HOH A 236 836 189 HOH HOH . C 3 HOH A 237 837 223 HOH HOH . C 3 HOH A 238 838 216 HOH HOH . C 3 HOH A 239 839 271 HOH HOH . C 3 HOH A 240 840 248 HOH HOH . C 3 HOH A 241 841 75 HOH HOH . C 3 HOH A 242 842 15 HOH HOH . C 3 HOH A 243 843 220 HOH HOH . C 3 HOH A 244 844 27 HOH HOH . C 3 HOH A 245 845 52 HOH HOH . C 3 HOH A 246 846 25 HOH HOH . C 3 HOH A 247 847 60 HOH HOH . C 3 HOH A 248 848 57 HOH HOH . C 3 HOH A 249 849 232 HOH HOH . C 3 HOH A 250 850 24 HOH HOH . C 3 HOH A 251 851 89 HOH HOH . C 3 HOH A 252 852 1 HOH HOH . C 3 HOH A 253 853 246 HOH HOH . C 3 HOH A 254 854 86 HOH HOH . C 3 HOH A 255 855 11 HOH HOH . C 3 HOH A 256 856 235 HOH HOH . C 3 HOH A 257 857 85 HOH HOH . C 3 HOH A 258 858 54 HOH HOH . C 3 HOH A 259 859 81 HOH HOH . C 3 HOH A 260 860 67 HOH HOH . C 3 HOH A 261 861 45 HOH HOH . C 3 HOH A 262 862 226 HOH HOH . C 3 HOH A 263 863 273 HOH HOH . C 3 HOH A 264 864 222 HOH HOH . C 3 HOH A 265 865 211 HOH HOH . C 3 HOH A 266 866 74 HOH HOH . C 3 HOH A 267 867 274 HOH HOH . C 3 HOH A 268 868 43 HOH HOH . C 3 HOH A 269 869 9 HOH HOH . C 3 HOH A 270 870 228 HOH HOH . C 3 HOH A 271 871 97 HOH HOH . C 3 HOH A 272 872 161 HOH HOH . C 3 HOH A 273 873 94 HOH HOH . C 3 HOH A 274 874 291 HOH HOH . C 3 HOH A 275 875 99 HOH HOH . C 3 HOH A 276 876 39 HOH HOH . C 3 HOH A 277 877 191 HOH HOH . C 3 HOH A 278 878 278 HOH HOH . C 3 HOH A 279 879 87 HOH HOH . C 3 HOH A 280 880 249 HOH HOH . C 3 HOH A 281 881 237 HOH HOH . C 3 HOH A 282 882 62 HOH HOH . C 3 HOH A 283 883 242 HOH HOH . C 3 HOH A 284 884 262 HOH HOH . C 3 HOH A 285 885 100 HOH HOH . C 3 HOH A 286 886 287 HOH HOH . C 3 HOH A 287 887 203 HOH HOH . C 3 HOH A 288 888 279 HOH HOH . C 3 HOH A 289 889 8 HOH HOH . C 3 HOH A 290 890 47 HOH HOH . C 3 HOH A 291 891 263 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 RIP . . . B 2 -18.928 7.17 13.678 1 11.74 ? C1 RIP 500 A 1 HETATM 2 C C2 RIP . . . B 2 -20.422 7.338 13.96 1 8.92 ? C2 RIP 500 A 1 HETATM 3 C C3 RIP . . . B 2 -20.881 6.306 14.983 1 9.1 ? C3 RIP 500 A 1 HETATM 4 C C4 RIP . . . B 2 -20.454 4.896 14.603 1 10.47 ? C4 RIP 500 A 1 HETATM 5 C C5 RIP . . . B 2 -18.973 4.861 14.282 1 11.32 ? C5 RIP 500 A 1 HETATM 6 O O1 RIP . . . B 2 -18.52 8.021 12.682 1 11.85 ? O1 RIP 500 A 1 HETATM 7 O O2 RIP . . . B 2 -20.651 8.648 14.482 1 9.02 ? O2 RIP 500 A 1 HETATM 8 O O3 RIP . . . B 2 -20.362 6.631 16.269 1 9.37 ? O3 RIP 500 A 1 HETATM 9 O O4 RIP . . . B 2 -20.723 3.974 15.657 1 13.18 ? O4 RIP 500 A 1 HETATM 10 O O5 RIP . . . B 2 -18.665 5.826 13.273 1 12.5 ? O5 RIP 500 A 1 # _model_server_stats.io_time_ms 44 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 10 #