data_6C9Z # _model_server_result.job_id MAf6M3ynaB0LVe2emkw0vg _model_server_result.datetime_utc '2025-01-10 20:17:29' _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 6c9z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":701}' # _entry.id 6C9Z # _exptl.entry_id 6C9Z _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 267.276 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1S,2S,3R,4S,5S)-5-[(1,3-dihydroxypropan-2-yl)amino]-1-(hydroxymethyl)cyclohexane-1,2,3,4-tetrol _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 107.82 _cell.angle_gamma 90 _cell.entry_id 6C9Z _cell.length_a 67.751 _cell.length_b 126.346 _cell.length_c 88.191 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6C9Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 2 1 A,B,C,D,E,F 3 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 'C10 H21 N O7' _chem_comp.formula_weight 267.276 _chem_comp.id VOG _chem_comp.mon_nstd_flag . _chem_comp.name (1S,2S,3R,4S,5S)-5-[(1,3-dihydroxypropan-2-yl)amino]-1-(hydroxymethyl)cyclohexane-1,2,3,4-tetrol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms voglibose # 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 O7 C7 VOG sing 376 n n C7 C1 VOG sing 377 n n O3 C3 VOG sing 378 n n C2 O2 VOG sing 379 n n C2 C3 VOG sing 380 n n C2 C1 VOG sing 381 n n C4 C3 VOG sing 382 n n C4 O4 VOG sing 383 n n C4 C5 VOG sing 384 n n C1 C6 VOG sing 385 n n C1 O1 VOG sing 386 n n C6 C5 VOG sing 387 n n C5 N VOG sing 388 n n N C8 VOG sing 389 n n C10 C8 VOG sing 390 n n C10 O10 VOG sing 391 n n C8 C9 VOG sing 392 n n C9 O9 VOG sing 393 n n O1 H1 VOG sing 394 n n C2 H2 VOG sing 395 n n O2 H3 VOG sing 396 n n C3 H4 VOG sing 397 n n O3 H5 VOG sing 398 n n C4 H6 VOG sing 399 n n O4 H7 VOG sing 400 n n C5 H8 VOG sing 401 n n C6 H9 VOG sing 402 n n C6 H10 VOG sing 403 n n C7 H11 VOG sing 404 n n C7 H12 VOG sing 405 n n O7 H13 VOG sing 406 n n N H14 VOG sing 407 n n C8 H16 VOG sing 408 n n C9 H17 VOG sing 409 n n C9 H18 VOG sing 410 n n O9 H19 VOG sing 411 n n C10 H20 VOG sing 412 n n C10 H21 VOG sing 413 n n O10 H22 VOG sing 414 n n # _atom_sites.entry_id 6C9Z _atom_sites.fract_transf_matrix[1][1] 0.01476 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004745 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007915 _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] 0.011911 _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 VOG A 1 701 1 VOG VOG . D 2 VOG B 1 701 2 VOG VOG . E 3 HOH A 1 801 13 HOH HOH . E 3 HOH A 2 802 116 HOH HOH . E 3 HOH A 3 803 62 HOH HOH . E 3 HOH A 4 804 222 HOH HOH . E 3 HOH A 5 805 250 HOH HOH . E 3 HOH A 6 806 110 HOH HOH . E 3 HOH A 7 807 111 HOH HOH . E 3 HOH A 8 808 240 HOH HOH . E 3 HOH A 9 809 182 HOH HOH . E 3 HOH A 10 810 216 HOH HOH . E 3 HOH A 11 811 219 HOH HOH . E 3 HOH A 12 812 205 HOH HOH . E 3 HOH A 13 813 197 HOH HOH . E 3 HOH A 14 814 220 HOH HOH . E 3 HOH A 15 815 164 HOH HOH . E 3 HOH A 16 816 115 HOH HOH . E 3 HOH A 17 817 169 HOH HOH . E 3 HOH A 18 818 98 HOH HOH . E 3 HOH A 19 819 42 HOH HOH . E 3 HOH A 20 820 65 HOH HOH . E 3 HOH A 21 821 46 HOH HOH . E 3 HOH A 22 822 165 HOH HOH . E 3 HOH A 23 823 41 HOH HOH . E 3 HOH A 24 824 77 HOH HOH . E 3 HOH A 25 825 108 HOH HOH . E 3 HOH A 26 826 231 HOH HOH . E 3 HOH A 27 827 141 HOH HOH . E 3 HOH A 28 828 221 HOH HOH . E 3 HOH A 29 829 158 HOH HOH . E 3 HOH A 30 830 136 HOH HOH . E 3 HOH A 31 831 61 HOH HOH . E 3 HOH A 32 832 34 HOH HOH . E 3 HOH A 33 833 18 HOH HOH . E 3 HOH A 34 834 4 HOH HOH . E 3 HOH A 35 835 225 HOH HOH . E 3 HOH A 36 836 124 HOH HOH . E 3 HOH A 37 837 79 HOH HOH . E 3 HOH A 38 838 143 HOH HOH . E 3 HOH A 39 839 134 HOH HOH . E 3 HOH A 40 840 130 HOH HOH . E 3 HOH A 41 841 121 HOH HOH . E 3 HOH A 42 842 162 HOH HOH . E 3 HOH A 43 843 232 HOH HOH . E 3 HOH A 44 844 199 HOH HOH . E 3 HOH A 45 845 208 HOH HOH . E 3 HOH A 46 846 50 HOH HOH . E 3 HOH A 47 847 150 HOH HOH . E 3 HOH A 48 848 154 HOH HOH . E 3 HOH A 49 849 107 HOH HOH . E 3 HOH A 50 850 72 HOH HOH . E 3 HOH A 51 851 166 HOH HOH . E 3 HOH A 52 852 21 HOH HOH . E 3 HOH A 53 853 83 HOH HOH . E 3 HOH A 54 854 247 HOH HOH . E 3 HOH A 55 855 190 HOH HOH . E 3 HOH A 56 856 6 HOH HOH . E 3 HOH A 57 857 1 HOH HOH . E 3 HOH A 58 858 76 HOH HOH . E 3 HOH A 59 859 75 HOH HOH . E 3 HOH A 60 860 189 HOH HOH . E 3 HOH A 61 861 203 HOH HOH . E 3 HOH A 62 862 15 HOH HOH . E 3 HOH A 63 863 3 HOH HOH . E 3 HOH A 64 864 89 HOH HOH . E 3 HOH A 65 865 24 HOH HOH . E 3 HOH A 66 866 137 HOH HOH . E 3 HOH A 67 867 177 HOH HOH . E 3 HOH A 68 868 132 HOH HOH . E 3 HOH A 69 869 106 HOH HOH . E 3 HOH A 70 870 148 HOH HOH . E 3 HOH A 71 871 237 HOH HOH . E 3 HOH A 72 872 14 HOH HOH . E 3 HOH A 73 873 230 HOH HOH . E 3 HOH A 74 874 8 HOH HOH . E 3 HOH A 75 875 94 HOH HOH . E 3 HOH A 76 876 180 HOH HOH . E 3 HOH A 77 877 135 HOH HOH . E 3 HOH A 78 878 245 HOH HOH . E 3 HOH A 79 879 153 HOH HOH . E 3 HOH A 80 880 35 HOH HOH . E 3 HOH A 81 881 119 HOH HOH . E 3 HOH A 82 882 51 HOH HOH . E 3 HOH A 83 883 103 HOH HOH . E 3 HOH A 84 884 168 HOH HOH . E 3 HOH A 85 885 68 HOH HOH . E 3 HOH A 86 886 253 HOH HOH . E 3 HOH A 87 887 210 HOH HOH . E 3 HOH A 88 888 32 HOH HOH . E 3 HOH A 89 889 243 HOH HOH . E 3 HOH A 90 890 194 HOH HOH . E 3 HOH A 91 891 224 HOH HOH . E 3 HOH A 92 892 139 HOH HOH . E 3 HOH A 93 893 2 HOH HOH . E 3 HOH A 94 894 218 HOH HOH . E 3 HOH A 95 895 155 HOH HOH . E 3 HOH A 96 896 241 HOH HOH . E 3 HOH A 97 897 188 HOH HOH . E 3 HOH A 98 898 209 HOH HOH . E 3 HOH A 99 899 128 HOH HOH . E 3 HOH A 100 900 38 HOH HOH . E 3 HOH A 101 901 17 HOH HOH . E 3 HOH A 102 902 123 HOH HOH . E 3 HOH A 103 903 53 HOH HOH . E 3 HOH A 104 904 26 HOH HOH . E 3 HOH A 105 905 25 HOH HOH . E 3 HOH A 106 906 133 HOH HOH . E 3 HOH A 107 907 97 HOH HOH . E 3 HOH A 108 908 142 HOH HOH . E 3 HOH A 109 909 193 HOH HOH . E 3 HOH A 110 910 102 HOH HOH . E 3 HOH A 111 911 152 HOH HOH . E 3 HOH A 112 912 234 HOH HOH . E 3 HOH A 113 913 33 HOH HOH . E 3 HOH A 114 914 238 HOH HOH . E 3 HOH A 115 915 138 HOH HOH . E 3 HOH A 116 916 109 HOH HOH . E 3 HOH A 117 917 146 HOH HOH . E 3 HOH A 118 918 93 HOH HOH . E 3 HOH A 119 919 228 HOH HOH . E 3 HOH A 120 920 147 HOH HOH . E 3 HOH A 121 921 226 HOH HOH . E 3 HOH A 122 922 157 HOH HOH . E 3 HOH A 123 923 206 HOH HOH . E 3 HOH A 124 924 201 HOH HOH . E 3 HOH A 125 925 66 HOH HOH . E 3 HOH A 126 926 91 HOH HOH . E 3 HOH A 127 927 47 HOH HOH . E 3 HOH A 128 928 7 HOH HOH . E 3 HOH A 129 929 185 HOH HOH . E 3 HOH A 130 930 112 HOH HOH . E 3 HOH A 131 931 55 HOH HOH . E 3 HOH A 132 932 144 HOH HOH . E 3 HOH A 133 933 178 HOH HOH . E 3 HOH A 134 934 44 HOH HOH . E 3 HOH A 135 935 100 HOH HOH . E 3 HOH A 136 936 101 HOH HOH . E 3 HOH A 137 937 233 HOH HOH . E 3 HOH A 138 938 195 HOH HOH . E 3 HOH A 139 939 159 HOH HOH . E 3 HOH A 140 940 186 HOH HOH . E 3 HOH A 141 941 254 HOH HOH . E 3 HOH A 142 942 122 HOH HOH . E 3 HOH A 143 943 43 HOH HOH . E 3 HOH A 144 944 20 HOH HOH . E 3 HOH A 145 945 213 HOH HOH . E 3 HOH A 146 946 239 HOH HOH . E 3 HOH A 147 947 261 HOH HOH . E 3 HOH A 148 948 255 HOH HOH . E 3 HOH A 149 949 151 HOH HOH . E 3 HOH A 150 950 242 HOH HOH . E 3 HOH A 151 951 259 HOH HOH . E 3 HOH A 152 952 260 HOH HOH . E 3 HOH A 153 953 256 HOH HOH . E 3 HOH A 154 954 262 HOH HOH . E 3 HOH A 155 955 258 HOH HOH . E 3 HOH A 156 956 263 HOH HOH . F 3 HOH B 1 801 96 HOH HOH . F 3 HOH B 2 802 85 HOH HOH . F 3 HOH B 3 803 57 HOH HOH . F 3 HOH B 4 804 163 HOH HOH . F 3 HOH B 5 805 78 HOH HOH . F 3 HOH B 6 806 171 HOH HOH . F 3 HOH B 7 807 105 HOH HOH . F 3 HOH B 8 808 73 HOH HOH . F 3 HOH B 9 809 173 HOH HOH . F 3 HOH B 10 810 30 HOH HOH . F 3 HOH B 11 811 99 HOH HOH . F 3 HOH B 12 812 246 HOH HOH . F 3 HOH B 13 813 60 HOH HOH . F 3 HOH B 14 814 45 HOH HOH . F 3 HOH B 15 815 81 HOH HOH . F 3 HOH B 16 816 125 HOH HOH . F 3 HOH B 17 817 170 HOH HOH . F 3 HOH B 18 818 84 HOH HOH . F 3 HOH B 19 819 12 HOH HOH . F 3 HOH B 20 820 200 HOH HOH . F 3 HOH B 21 821 212 HOH HOH . F 3 HOH B 22 822 196 HOH HOH . F 3 HOH B 23 823 191 HOH HOH . F 3 HOH B 24 824 70 HOH HOH . F 3 HOH B 25 825 252 HOH HOH . F 3 HOH B 26 826 87 HOH HOH . F 3 HOH B 27 827 11 HOH HOH . F 3 HOH B 28 828 104 HOH HOH . F 3 HOH B 29 829 211 HOH HOH . F 3 HOH B 30 830 39 HOH HOH . F 3 HOH B 31 831 40 HOH HOH . F 3 HOH B 32 832 126 HOH HOH . F 3 HOH B 33 833 31 HOH HOH . F 3 HOH B 34 834 27 HOH HOH . F 3 HOH B 35 835 86 HOH HOH . F 3 HOH B 36 836 198 HOH HOH . F 3 HOH B 37 837 56 HOH HOH . F 3 HOH B 38 838 69 HOH HOH . F 3 HOH B 39 839 229 HOH HOH . F 3 HOH B 40 840 49 HOH HOH . F 3 HOH B 41 841 48 HOH HOH . F 3 HOH B 42 842 248 HOH HOH . F 3 HOH B 43 843 187 HOH HOH . F 3 HOH B 44 844 214 HOH HOH . F 3 HOH B 45 845 167 HOH HOH . F 3 HOH B 46 846 175 HOH HOH . F 3 HOH B 47 847 90 HOH HOH . F 3 HOH B 48 848 67 HOH HOH . F 3 HOH B 49 849 227 HOH HOH . F 3 HOH B 50 850 217 HOH HOH . F 3 HOH B 51 851 5 HOH HOH . F 3 HOH B 52 852 92 HOH HOH . F 3 HOH B 53 853 16 HOH HOH . F 3 HOH B 54 854 161 HOH HOH . F 3 HOH B 55 855 181 HOH HOH . F 3 HOH B 56 856 28 HOH HOH . F 3 HOH B 57 857 29 HOH HOH . F 3 HOH B 58 858 10 HOH HOH . F 3 HOH B 59 859 82 HOH HOH . F 3 HOH B 60 860 113 HOH HOH . F 3 HOH B 61 861 54 HOH HOH . F 3 HOH B 62 862 118 HOH HOH . F 3 HOH B 63 863 88 HOH HOH . F 3 HOH B 64 864 183 HOH HOH . F 3 HOH B 65 865 192 HOH HOH . F 3 HOH B 66 866 71 HOH HOH . F 3 HOH B 67 867 95 HOH HOH . F 3 HOH B 68 868 58 HOH HOH . F 3 HOH B 69 869 176 HOH HOH . F 3 HOH B 70 870 156 HOH HOH . F 3 HOH B 71 871 23 HOH HOH . F 3 HOH B 72 872 114 HOH HOH . F 3 HOH B 73 873 244 HOH HOH . F 3 HOH B 74 874 149 HOH HOH . F 3 HOH B 75 875 235 HOH HOH . F 3 HOH B 76 876 129 HOH HOH . F 3 HOH B 77 877 223 HOH HOH . F 3 HOH B 78 878 19 HOH HOH . F 3 HOH B 79 879 204 HOH HOH . F 3 HOH B 80 880 52 HOH HOH . F 3 HOH B 81 881 145 HOH HOH . F 3 HOH B 82 882 236 HOH HOH . F 3 HOH B 83 883 80 HOH HOH . F 3 HOH B 84 884 22 HOH HOH . F 3 HOH B 85 885 172 HOH HOH . F 3 HOH B 86 886 59 HOH HOH . F 3 HOH B 87 887 160 HOH HOH . F 3 HOH B 88 888 131 HOH HOH . F 3 HOH B 89 889 36 HOH HOH . F 3 HOH B 90 890 179 HOH HOH . F 3 HOH B 91 891 117 HOH HOH . F 3 HOH B 92 892 127 HOH HOH . F 3 HOH B 93 893 37 HOH HOH . F 3 HOH B 94 894 174 HOH HOH . F 3 HOH B 95 895 251 HOH HOH . F 3 HOH B 96 896 120 HOH HOH . F 3 HOH B 97 897 202 HOH HOH . F 3 HOH B 98 898 184 HOH HOH . F 3 HOH B 99 899 74 HOH HOH . F 3 HOH B 100 900 215 HOH HOH . F 3 HOH B 101 901 207 HOH HOH . F 3 HOH B 102 902 140 HOH HOH . F 3 HOH B 103 903 249 HOH HOH . F 3 HOH B 104 904 64 HOH HOH . F 3 HOH B 105 905 257 HOH HOH . F 3 HOH B 106 906 9 HOH HOH . F 3 HOH B 107 907 63 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 VOG . . . D 2 4.464 -10.893 62.816 1 38.9 ? C1 VOG 701 B 1 HETATM 2 O O1 VOG . . . D 2 4.724 -11.289 61.511 1 42.66 ? O1 VOG 701 B 1 HETATM 3 C C2 VOG . . . D 2 5.547 -9.958 63.28 1 40.53 ? C2 VOG 701 B 1 HETATM 4 O O2 VOG . . . D 2 6.784 -10.478 62.906 1 43.67 ? O2 VOG 701 B 1 HETATM 5 C C3 VOG . . . D 2 5.409 -8.564 62.749 1 40.78 ? C3 VOG 701 B 1 HETATM 6 O O3 VOG . . . D 2 6.382 -7.772 63.323 1 42.93 ? O3 VOG 701 B 1 HETATM 7 C C4 VOG . . . D 2 4.038 -8.022 63.051 1 42.25 ? C4 VOG 701 B 1 HETATM 8 O O4 VOG . . . D 2 3.9 -6.711 62.608 1 42.27 ? O4 VOG 701 B 1 HETATM 9 C C5 VOG . . . D 2 2.969 -8.872 62.43 1 44.58 ? C5 VOG 701 B 1 HETATM 10 C C6 VOG . . . D 2 3.081 -10.312 62.852 1 42.21 ? C6 VOG 701 B 1 HETATM 11 C C7 VOG . . . D 2 4.495 -12.093 63.725 1 40.15 ? C7 VOG 701 B 1 HETATM 12 O O7 VOG . . . D 2 4.621 -11.853 65.072 1 38.66 ? O7 VOG 701 B 1 HETATM 13 N N VOG . . . D 2 3.031 -8.764 60.977 1 49.89 ? N VOG 701 B 1 HETATM 14 C C8 VOG . . . D 2 2.045 -9.642 60.212 1 49.56 ? C8 VOG 701 B 1 HETATM 15 C C9 VOG . . . D 2 2.356 -9.794 58.743 1 46.39 ? C9 VOG 701 B 1 HETATM 16 O O9 VOG . . . D 2 3.461 -10.542 58.432 1 47.13 ? O9 VOG 701 B 1 HETATM 17 C C10 VOG . . . D 2 0.582 -9.39 60.477 1 45.95 ? C10 VOG 701 B 1 HETATM 18 O O10 VOG . . . D 2 0.205 -8.077 60.684 1 45.93 ? O10 VOG 701 B 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 18 #