data_5V6K # _model_server_result.job_id sbUAUswUGJZisRQQgkAmHg _model_server_result.datetime_utc '2024-10-20 00:24:13' _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 5v6k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1003}' # _entry.id 5V6K # _exptl.entry_id 5V6K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 105.26 _cell.angle_gamma 90 _cell.entry_id 5V6K _cell.length_a 31.94 _cell.length_b 38.77 _cell.length_c 51.89 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5V6K _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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 _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 # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 MAN _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O2 _pdbx_entity_branch_link.leaving_atom_id_2 HO2 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B MAN 1 B 1 MAN A 1002 MAN 2 n B NAG 2 B 2 NAG A 1001 NAG # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_atom_id O2 _struct_conn.ptnr1_label_comp_id MAN _struct_conn.ptnr1_label_seq_id . _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id MAN _struct_conn.ptnr1_auth_seq_id 1 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C1 _struct_conn.ptnr2_label_comp_id NAG _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id NAG _struct_conn.ptnr2_auth_seq_id 2 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id A _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.pdbx_ptnr2_label_alt_id A _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 1.44 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 O1 GOL sing 116 n n C1 C2 GOL sing 117 n n C1 H11 GOL sing 118 n n C1 H12 GOL sing 119 n n O1 HO1 GOL sing 120 n n C2 O2 GOL sing 121 n n C2 C3 GOL sing 122 n n C2 H2 GOL sing 123 n n O2 HO2 GOL sing 124 n n C3 O3 GOL sing 125 n n C3 H31 GOL sing 126 n n C3 H32 GOL sing 127 n n O3 HO3 GOL sing 128 n n # _atom_sites.entry_id 5V6K _atom_sites.fract_transf_matrix[1][1] 0.031309 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.008542 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.025793 _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] 0.019976 _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 3 GOL A 1 1003 1002 GOL GOL . D 4 HOH A 1 1101 1309 HOH HOH . D 4 HOH A 2 1102 1283 HOH HOH . D 4 HOH A 3 1103 1310 HOH HOH . D 4 HOH A 4 1104 1174 HOH HOH . D 4 HOH A 5 1105 1169 HOH HOH . D 4 HOH A 6 1106 1103 HOH HOH . D 4 HOH A 7 1107 1164 HOH HOH . D 4 HOH A 8 1108 1282 HOH HOH . D 4 HOH A 9 1109 1173 HOH HOH . D 4 HOH A 10 1110 1111 HOH HOH . D 4 HOH A 11 1111 1209 HOH HOH . D 4 HOH A 12 1112 1258 HOH HOH . D 4 HOH A 13 1113 1301 HOH HOH . D 4 HOH A 14 1114 1232 HOH HOH . D 4 HOH A 15 1115 1249 HOH HOH . D 4 HOH A 16 1116 1105 HOH HOH . D 4 HOH A 17 1117 1149 HOH HOH . D 4 HOH A 18 1118 1148 HOH HOH . D 4 HOH A 19 1119 1203 HOH HOH . D 4 HOH A 20 1120 1101 HOH HOH . D 4 HOH A 21 1121 1143 HOH HOH . D 4 HOH A 22 1122 1144 HOH HOH . D 4 HOH A 23 1123 1162 HOH HOH . D 4 HOH A 24 1124 1139 HOH HOH . D 4 HOH A 25 1125 1136 HOH HOH . D 4 HOH A 26 1126 1120 HOH HOH . D 4 HOH A 27 1127 1140 HOH HOH . D 4 HOH A 28 1128 1166 HOH HOH . D 4 HOH A 29 1129 1170 HOH HOH . D 4 HOH A 30 1130 1183 HOH HOH . D 4 HOH A 31 1131 1121 HOH HOH . D 4 HOH A 32 1132 1151 HOH HOH . D 4 HOH A 33 1133 1281 HOH HOH . D 4 HOH A 34 1134 1180 HOH HOH . D 4 HOH A 35 1135 1181 HOH HOH . D 4 HOH A 36 1136 1179 HOH HOH . D 4 HOH A 37 1137 1129 HOH HOH . D 4 HOH A 38 1138 1293 HOH HOH . D 4 HOH A 39 1139 1236 HOH HOH . D 4 HOH A 40 1140 1117 HOH HOH . D 4 HOH A 41 1141 1138 HOH HOH . D 4 HOH A 42 1142 1215 HOH HOH . D 4 HOH A 43 1143 1107 HOH HOH . D 4 HOH A 44 1144 1213 HOH HOH . D 4 HOH A 45 1145 1157 HOH HOH . D 4 HOH A 46 1146 1158 HOH HOH . D 4 HOH A 47 1147 1118 HOH HOH . D 4 HOH A 48 1148 1125 HOH HOH . D 4 HOH A 49 1149 1178 HOH HOH . D 4 HOH A 50 1150 1210 HOH HOH . D 4 HOH A 51 1151 1106 HOH HOH . D 4 HOH A 52 1152 1142 HOH HOH . D 4 HOH A 53 1153 1270 HOH HOH . D 4 HOH A 54 1154 1135 HOH HOH . D 4 HOH A 55 1155 1187 HOH HOH . D 4 HOH A 56 1156 1145 HOH HOH . D 4 HOH A 57 1157 1194 HOH HOH . D 4 HOH A 58 1158 1116 HOH HOH . D 4 HOH A 59 1159 1235 HOH HOH . D 4 HOH A 60 1160 1217 HOH HOH . D 4 HOH A 61 1161 1159 HOH HOH . D 4 HOH A 62 1162 1185 HOH HOH . D 4 HOH A 63 1163 1110 HOH HOH . D 4 HOH A 64 1164 1176 HOH HOH . D 4 HOH A 65 1165 1119 HOH HOH . D 4 HOH A 66 1166 1195 HOH HOH . D 4 HOH A 67 1167 1228 HOH HOH . D 4 HOH A 68 1168 1141 HOH HOH . D 4 HOH A 69 1169 1254 HOH HOH . D 4 HOH A 70 1170 1133 HOH HOH . D 4 HOH A 71 1171 1152 HOH HOH . D 4 HOH A 72 1172 1124 HOH HOH . D 4 HOH A 73 1173 1130 HOH HOH . D 4 HOH A 74 1174 1114 HOH HOH . D 4 HOH A 75 1175 1238 HOH HOH . D 4 HOH A 76 1176 1239 HOH HOH . D 4 HOH A 77 1177 1172 HOH HOH . D 4 HOH A 78 1178 1132 HOH HOH . D 4 HOH A 79 1179 1108 HOH HOH . D 4 HOH A 80 1180 1311 HOH HOH . D 4 HOH A 81 1181 1175 HOH HOH . D 4 HOH A 82 1182 1137 HOH HOH . D 4 HOH A 83 1183 1109 HOH HOH . D 4 HOH A 84 1184 1271 HOH HOH . D 4 HOH A 85 1185 1231 HOH HOH . D 4 HOH A 86 1186 1123 HOH HOH . D 4 HOH A 87 1187 1165 HOH HOH . D 4 HOH A 88 1188 1312 HOH HOH . D 4 HOH A 89 1189 1128 HOH HOH . D 4 HOH A 90 1190 1268 HOH HOH . D 4 HOH A 91 1191 1313 HOH HOH . D 4 HOH A 92 1192 1263 HOH HOH . D 4 HOH A 93 1193 1253 HOH HOH . D 4 HOH A 94 1194 1251 HOH HOH . D 4 HOH A 95 1195 1126 HOH HOH . D 4 HOH A 96 1196 1308 HOH HOH . D 4 HOH A 97 1197 1102 HOH HOH . D 4 HOH A 98 1198 1163 HOH HOH . D 4 HOH A 99 1199 1112 HOH HOH . D 4 HOH A 100 1200 1274 HOH HOH . D 4 HOH A 101 1201 1146 HOH HOH . D 4 HOH A 102 1202 1115 HOH HOH . D 4 HOH A 103 1203 1296 HOH HOH . D 4 HOH A 104 1204 1200 HOH HOH . D 4 HOH A 105 1205 1314 HOH HOH . D 4 HOH A 106 1206 1294 HOH HOH . D 4 HOH A 107 1207 1216 HOH HOH . D 4 HOH A 108 1208 1134 HOH HOH . D 4 HOH A 109 1209 1241 HOH HOH . D 4 HOH A 110 1210 1197 HOH HOH . D 4 HOH A 111 1211 1198 HOH HOH . D 4 HOH A 112 1212 1300 HOH HOH . D 4 HOH A 113 1213 1199 HOH HOH . D 4 HOH A 114 1214 1147 HOH HOH . D 4 HOH A 115 1215 1168 HOH HOH . D 4 HOH A 116 1216 1278 HOH HOH . D 4 HOH A 117 1217 1246 HOH HOH . D 4 HOH A 118 1218 1155 HOH HOH . D 4 HOH A 119 1219 1131 HOH HOH . D 4 HOH A 120 1220 1265 HOH HOH . D 4 HOH A 121 1221 1223 HOH HOH . D 4 HOH A 122 1222 1247 HOH HOH . D 4 HOH A 123 1223 1229 HOH HOH . D 4 HOH A 124 1224 1276 HOH HOH . D 4 HOH A 125 1225 1104 HOH HOH . D 4 HOH A 126 1226 1262 HOH HOH . D 4 HOH A 127 1227 1113 HOH HOH . D 4 HOH A 128 1228 1204 HOH HOH . D 4 HOH A 129 1229 1122 HOH HOH . D 4 HOH A 130 1230 1196 HOH HOH . D 4 HOH A 131 1231 1220 HOH HOH . D 4 HOH A 132 1232 1305 HOH HOH . D 4 HOH A 133 1233 1218 HOH HOH . D 4 HOH A 134 1234 1192 HOH HOH . D 4 HOH A 135 1235 1237 HOH HOH . D 4 HOH A 136 1236 1299 HOH HOH . D 4 HOH A 137 1237 1256 HOH HOH . D 4 HOH A 138 1238 1252 HOH HOH . D 4 HOH A 139 1239 1167 HOH HOH . D 4 HOH A 140 1240 1207 HOH HOH . D 4 HOH A 141 1241 1222 HOH HOH . D 4 HOH A 142 1242 1279 HOH HOH . D 4 HOH A 143 1243 1275 HOH HOH . D 4 HOH A 144 1244 1295 HOH HOH . D 4 HOH A 145 1245 1255 HOH HOH . D 4 HOH A 146 1246 1191 HOH HOH . D 4 HOH A 147 1247 1214 HOH HOH . D 4 HOH A 148 1248 1307 HOH HOH . D 4 HOH A 149 1249 1290 HOH HOH . D 4 HOH A 150 1250 1277 HOH HOH . D 4 HOH A 151 1251 1287 HOH HOH . D 4 HOH A 152 1252 1257 HOH HOH . D 4 HOH A 153 1253 1280 HOH HOH . D 4 HOH A 154 1254 1315 HOH HOH . D 4 HOH A 155 1255 1306 HOH HOH . D 4 HOH A 156 1256 1225 HOH HOH . D 4 HOH A 157 1257 1127 HOH HOH . D 4 HOH A 158 1258 1291 HOH HOH . D 4 HOH A 159 1259 1154 HOH HOH . D 4 HOH A 160 1260 1177 HOH HOH . D 4 HOH A 161 1261 1286 HOH HOH . D 4 HOH A 162 1262 1206 HOH HOH . D 4 HOH A 163 1263 1297 HOH HOH . D 4 HOH A 164 1264 1190 HOH HOH . D 4 HOH A 165 1265 1211 HOH HOH . D 4 HOH A 166 1266 1224 HOH HOH . D 4 HOH A 167 1267 1244 HOH HOH . D 4 HOH A 168 1268 1266 HOH HOH . D 4 HOH A 169 1269 1201 HOH HOH . D 4 HOH A 170 1270 1260 HOH HOH . D 4 HOH A 171 1271 1243 HOH HOH . D 4 HOH A 172 1272 1221 HOH HOH . D 4 HOH A 173 1273 1303 HOH HOH . D 4 HOH A 174 1274 1264 HOH HOH . D 4 HOH A 175 1275 1161 HOH HOH . D 4 HOH A 176 1276 1186 HOH HOH . D 4 HOH A 177 1277 1189 HOH HOH . D 4 HOH A 178 1278 1150 HOH HOH . D 4 HOH A 179 1279 1230 HOH HOH . D 4 HOH A 180 1280 1171 HOH HOH . D 4 HOH A 181 1281 1208 HOH HOH . D 4 HOH A 182 1282 1269 HOH HOH . D 4 HOH A 183 1283 1261 HOH HOH . D 4 HOH A 184 1284 1259 HOH HOH . D 4 HOH A 185 1285 1302 HOH HOH . D 4 HOH A 186 1286 1227 HOH HOH . D 4 HOH A 187 1287 1153 HOH HOH . D 4 HOH A 188 1288 1284 HOH HOH . D 4 HOH A 189 1289 1188 HOH HOH . D 4 HOH A 190 1290 1212 HOH HOH . D 4 HOH A 191 1291 1292 HOH HOH . D 4 HOH A 192 1292 1298 HOH HOH . D 4 HOH A 193 1293 1240 HOH HOH . D 4 HOH A 194 1294 1193 HOH HOH . D 4 HOH A 195 1295 1182 HOH HOH . D 4 HOH A 196 1296 1289 HOH HOH . D 4 HOH A 197 1297 1202 HOH HOH . D 4 HOH A 198 1298 1234 HOH HOH . D 4 HOH A 199 1299 1304 HOH HOH . D 4 HOH A 200 1300 1285 HOH HOH . D 4 HOH A 201 1301 1245 HOH HOH . D 4 HOH A 202 1302 1273 HOH HOH . D 4 HOH A 203 1303 1250 HOH HOH . D 4 HOH A 204 1304 1184 HOH HOH . D 4 HOH A 205 1305 1272 HOH HOH . D 4 HOH A 206 1306 1219 HOH HOH . D 4 HOH A 207 1307 1205 HOH HOH . D 4 HOH A 208 1308 1288 HOH HOH . D 4 HOH A 209 1309 1160 HOH HOH . D 4 HOH A 210 1310 1267 HOH HOH . D 4 HOH A 211 1311 1226 HOH HOH . D 4 HOH A 212 1312 1248 HOH HOH . D 4 HOH A 213 1313 1156 HOH HOH . D 4 HOH A 214 1314 1233 HOH HOH . D 4 HOH A 215 1315 1242 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 GOL . B . C 3 8.653 14.973 -12.944 0.35 12.41 ? C1 GOL 1003 A 1 HETATM 2 O O1 GOL . B . C 3 8.348 14.092 -11.886 0.35 10.23 ? O1 GOL 1003 A 1 HETATM 3 C C2 GOL . B . C 3 9.667 16.012 -12.479 0.35 12.62 ? C2 GOL 1003 A 1 HETATM 4 O O2 GOL . B . C 3 9.364 16.414 -11.163 0.35 14.07 ? O2 GOL 1003 A 1 HETATM 5 C C3 GOL . B . C 3 11.077 15.431 -12.53 0.35 13.55 ? C3 GOL 1003 A 1 HETATM 6 O O3 GOL . B . C 3 11.399 15.08 -13.857 0.35 13.4 ? O3 GOL 1003 A 1 HETATM 7 H H11 GOL . B . C 3 7.744 15.472 -13.28 0.35 14.94 ? H11 GOL 1003 A 1 HETATM 8 H H12 GOL . B . C 3 9.062 14.411 -13.784 0.35 14.94 ? H12 GOL 1003 A 1 HETATM 9 H HO1 GOL . B . C 3 7.648 13.469 -12.171 0.35 12.32 ? HO1 GOL 1003 A 1 HETATM 10 H H2 GOL . B . C 3 9.619 16.871 -13.148 0.35 15.19 ? H2 GOL 1003 A 1 HETATM 11 H HO2 GOL . B . C 3 9.428 15.642 -10.563 0.35 16.93 ? HO2 GOL 1003 A 1 HETATM 12 H H31 GOL . B . C 3 11.135 14.55 -11.891 0.35 16.3 ? H31 GOL 1003 A 1 HETATM 13 H H32 GOL . B . C 3 11.791 16.167 -12.16 0.35 16.3 ? H32 GOL 1003 A 1 HETATM 14 H HO3 GOL . B . C 3 11.234 14.123 -13.99 0.35 16.12 ? HO3 GOL 1003 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 261 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 14 #