data_4ZYX # _model_server_result.job_id jw5BfuW6MHYEwH_2a48Iog _model_server_result.datetime_utc '2024-11-22 22:23:57' _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 4zyx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1102}' # _entry.id 4ZYX # _exptl.entry_id 4ZYX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 461.492 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'N-({4-[4-(2-amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-6-yl)butyl]thiophen-2-yl}carbonyl)-L-glutamic acid' _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 4ZYX _cell.length_a 75.328 _cell.length_b 75.328 _cell.length_c 100.856 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZYX _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 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 # _chem_comp.formula 'C20 H23 N5 O6 S' _chem_comp.formula_weight 461.492 _chem_comp.id 3YB _chem_comp.mon_nstd_flag . _chem_comp.name 'N-({4-[4-(2-amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-6-yl)butyl]thiophen-2-yl}carbonyl)-L-glutamic acid' _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 O25 C23 3YB doub 1 n n C23 O24 3YB sing 2 n n C23 C22 3YB sing 3 n n C22 C21 3YB sing 4 n n C21 C20 3YB sing 5 n n O18 C17 3YB doub 6 n n C20 N19 3YB sing 7 n n C20 C26 3YB sing 8 n n C17 N19 3YB sing 9 n n C17 C13 3YB sing 10 n n C13 S14 3YB sing 11 n y C13 C12 3YB doub 12 n y S14 C15 3YB sing 13 n y O27 C26 3YB doub 14 n n C26 O28 3YB sing 15 n n C12 C16 3YB sing 16 n y C15 C16 3YB doub 17 n y C16 C32 3YB sing 18 n n C32 C31 3YB sing 19 n n C31 C30 3YB sing 20 n n C30 C29 3YB sing 21 n n C29 C6 3YB sing 22 n n C6 N5 3YB sing 23 n y C6 C7 3YB doub 24 n y N5 C9 3YB sing 25 n y C7 C8 3YB sing 26 n y C9 C8 3YB doub 27 n y C9 N1 3YB sing 28 n n C8 C4 3YB sing 29 n n N1 C2 3YB doub 30 n n C4 O10 3YB doub 31 n n C4 N3 3YB sing 32 n n C2 N3 3YB sing 33 n n C2 N11 3YB sing 34 n n N3 H1 3YB sing 35 n n N5 H2 3YB sing 36 n n C7 H3 3YB sing 37 n n N11 H4 3YB sing 38 n n N11 H5 3YB sing 39 n n C12 H6 3YB sing 40 n n C15 H7 3YB sing 41 n n N19 H8 3YB sing 42 n n C20 H9 3YB sing 43 n n C21 H10 3YB sing 44 n n C21 H11 3YB sing 45 n n C22 H12 3YB sing 46 n n C22 H13 3YB sing 47 n n O24 H14 3YB sing 48 n n O28 H15 3YB sing 49 n n C29 H16 3YB sing 50 n n C29 H17 3YB sing 51 n n C30 H18 3YB sing 52 n n C30 H19 3YB sing 53 n n C31 H20 3YB sing 54 n n C31 H21 3YB sing 55 n n C32 H22 3YB sing 56 n n C32 H23 3YB sing 57 n n # _atom_sites.entry_id 4ZYX _atom_sites.fract_transf_matrix[1][1] 0.013275 _atom_sites.fract_transf_matrix[1][2] 0.007664 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015329 _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] 0.009915 _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 GAR A 1 1101 1016 GAR GAR . C 3 3YB A 1 1102 1017 3YB 3GD . D 4 HOH A 1 1201 133 HOH HOH . D 4 HOH A 2 1202 146 HOH HOH . D 4 HOH A 3 1203 96 HOH HOH . D 4 HOH A 4 1204 88 HOH HOH . D 4 HOH A 5 1205 134 HOH HOH . D 4 HOH A 6 1206 104 HOH HOH . D 4 HOH A 7 1207 16 HOH HOH . D 4 HOH A 8 1208 63 HOH HOH . D 4 HOH A 9 1209 79 HOH HOH . D 4 HOH A 10 1210 43 HOH HOH . D 4 HOH A 11 1211 172 HOH HOH . D 4 HOH A 12 1212 86 HOH HOH . D 4 HOH A 13 1213 51 HOH HOH . D 4 HOH A 14 1214 25 HOH HOH . D 4 HOH A 15 1215 106 HOH HOH . D 4 HOH A 16 1216 170 HOH HOH . D 4 HOH A 17 1217 102 HOH HOH . D 4 HOH A 18 1218 67 HOH HOH . D 4 HOH A 19 1219 184 HOH HOH . D 4 HOH A 20 1220 157 HOH HOH . D 4 HOH A 21 1221 75 HOH HOH . D 4 HOH A 22 1222 22 HOH HOH . D 4 HOH A 23 1223 10 HOH HOH . D 4 HOH A 24 1224 143 HOH HOH . D 4 HOH A 25 1225 105 HOH HOH . D 4 HOH A 26 1226 117 HOH HOH . D 4 HOH A 27 1227 7 HOH HOH . D 4 HOH A 28 1228 72 HOH HOH . D 4 HOH A 29 1229 167 HOH HOH . D 4 HOH A 30 1230 82 HOH HOH . D 4 HOH A 31 1231 3 HOH HOH . D 4 HOH A 32 1232 80 HOH HOH . D 4 HOH A 33 1233 21 HOH HOH . D 4 HOH A 34 1234 175 HOH HOH . D 4 HOH A 35 1235 98 HOH HOH . D 4 HOH A 36 1236 89 HOH HOH . D 4 HOH A 37 1237 36 HOH HOH . D 4 HOH A 38 1238 28 HOH HOH . D 4 HOH A 39 1239 141 HOH HOH . D 4 HOH A 40 1240 14 HOH HOH . D 4 HOH A 41 1241 155 HOH HOH . D 4 HOH A 42 1242 159 HOH HOH . D 4 HOH A 43 1243 188 HOH HOH . D 4 HOH A 44 1244 162 HOH HOH . D 4 HOH A 45 1245 56 HOH HOH . D 4 HOH A 46 1246 138 HOH HOH . D 4 HOH A 47 1247 23 HOH HOH . D 4 HOH A 48 1248 83 HOH HOH . D 4 HOH A 49 1249 62 HOH HOH . D 4 HOH A 50 1250 195 HOH HOH . D 4 HOH A 51 1251 191 HOH HOH . D 4 HOH A 52 1252 27 HOH HOH . D 4 HOH A 53 1253 65 HOH HOH . D 4 HOH A 54 1254 2 HOH HOH . D 4 HOH A 55 1255 31 HOH HOH . D 4 HOH A 56 1256 45 HOH HOH . D 4 HOH A 57 1257 160 HOH HOH . D 4 HOH A 58 1258 12 HOH HOH . D 4 HOH A 59 1259 61 HOH HOH . D 4 HOH A 60 1260 33 HOH HOH . D 4 HOH A 61 1261 57 HOH HOH . D 4 HOH A 62 1262 4 HOH HOH . D 4 HOH A 63 1263 201 HOH HOH . D 4 HOH A 64 1264 20 HOH HOH . D 4 HOH A 65 1265 108 HOH HOH . D 4 HOH A 66 1266 34 HOH HOH . D 4 HOH A 67 1267 48 HOH HOH . D 4 HOH A 68 1268 163 HOH HOH . D 4 HOH A 69 1269 120 HOH HOH . D 4 HOH A 70 1270 203 HOH HOH . D 4 HOH A 71 1271 30 HOH HOH . D 4 HOH A 72 1272 182 HOH HOH . D 4 HOH A 73 1273 180 HOH HOH . D 4 HOH A 74 1274 123 HOH HOH . D 4 HOH A 75 1275 46 HOH HOH . D 4 HOH A 76 1276 58 HOH HOH . D 4 HOH A 77 1277 50 HOH HOH . D 4 HOH A 78 1278 32 HOH HOH . D 4 HOH A 79 1279 6 HOH HOH . D 4 HOH A 80 1280 17 HOH HOH . D 4 HOH A 81 1281 18 HOH HOH . D 4 HOH A 82 1282 44 HOH HOH . D 4 HOH A 83 1283 145 HOH HOH . D 4 HOH A 84 1284 53 HOH HOH . D 4 HOH A 85 1285 153 HOH HOH . D 4 HOH A 86 1286 192 HOH HOH . D 4 HOH A 87 1287 131 HOH HOH . D 4 HOH A 88 1288 95 HOH HOH . D 4 HOH A 89 1289 26 HOH HOH . D 4 HOH A 90 1290 126 HOH HOH . D 4 HOH A 91 1291 202 HOH HOH . D 4 HOH A 92 1292 116 HOH HOH . D 4 HOH A 93 1293 1 HOH HOH . D 4 HOH A 94 1294 40 HOH HOH . D 4 HOH A 95 1295 59 HOH HOH . D 4 HOH A 96 1296 125 HOH HOH . D 4 HOH A 97 1297 158 HOH HOH . D 4 HOH A 98 1298 73 HOH HOH . D 4 HOH A 99 1299 171 HOH HOH . D 4 HOH A 100 1300 121 HOH HOH . D 4 HOH A 101 1301 130 HOH HOH . D 4 HOH A 102 1302 41 HOH HOH . D 4 HOH A 103 1303 76 HOH HOH . D 4 HOH A 104 1304 35 HOH HOH . D 4 HOH A 105 1305 11 HOH HOH . D 4 HOH A 106 1306 71 HOH HOH . D 4 HOH A 107 1307 8 HOH HOH . D 4 HOH A 108 1308 15 HOH HOH . D 4 HOH A 109 1309 69 HOH HOH . D 4 HOH A 110 1310 161 HOH HOH . D 4 HOH A 111 1311 198 HOH HOH . D 4 HOH A 112 1312 193 HOH HOH . D 4 HOH A 113 1313 194 HOH HOH . D 4 HOH A 114 1314 54 HOH HOH . D 4 HOH A 115 1315 97 HOH HOH . D 4 HOH A 116 1316 85 HOH HOH . D 4 HOH A 117 1317 81 HOH HOH . D 4 HOH A 118 1318 60 HOH HOH . D 4 HOH A 119 1319 84 HOH HOH . D 4 HOH A 120 1320 9 HOH HOH . D 4 HOH A 121 1321 109 HOH HOH . D 4 HOH A 122 1322 176 HOH HOH . D 4 HOH A 123 1323 29 HOH HOH . D 4 HOH A 124 1324 13 HOH HOH . D 4 HOH A 125 1325 38 HOH HOH . D 4 HOH A 126 1326 129 HOH HOH . D 4 HOH A 127 1327 122 HOH HOH . D 4 HOH A 128 1328 19 HOH HOH . D 4 HOH A 129 1329 5 HOH HOH . D 4 HOH A 130 1330 68 HOH HOH . D 4 HOH A 131 1331 200 HOH HOH . D 4 HOH A 132 1332 66 HOH HOH . D 4 HOH A 133 1333 37 HOH HOH . D 4 HOH A 134 1334 118 HOH HOH . D 4 HOH A 135 1335 94 HOH HOH . D 4 HOH A 136 1336 87 HOH HOH . D 4 HOH A 137 1337 64 HOH HOH . D 4 HOH A 138 1338 47 HOH HOH . D 4 HOH A 139 1339 166 HOH HOH . D 4 HOH A 140 1340 151 HOH HOH . D 4 HOH A 141 1341 181 HOH HOH . D 4 HOH A 142 1342 101 HOH HOH . D 4 HOH A 143 1343 196 HOH HOH . D 4 HOH A 144 1344 183 HOH HOH . D 4 HOH A 145 1345 127 HOH HOH . D 4 HOH A 146 1346 148 HOH HOH . D 4 HOH A 147 1347 136 HOH HOH . D 4 HOH A 148 1348 169 HOH HOH . D 4 HOH A 149 1349 179 HOH HOH . D 4 HOH A 150 1350 173 HOH HOH . D 4 HOH A 151 1351 144 HOH HOH . D 4 HOH A 152 1352 124 HOH HOH . D 4 HOH A 153 1353 149 HOH HOH . D 4 HOH A 154 1354 107 HOH HOH . D 4 HOH A 155 1355 174 HOH HOH . D 4 HOH A 156 1356 140 HOH HOH . D 4 HOH A 157 1357 189 HOH HOH . D 4 HOH A 158 1358 205 HOH HOH . D 4 HOH A 159 1359 154 HOH HOH . D 4 HOH A 160 1360 152 HOH HOH . D 4 HOH A 161 1361 132 HOH HOH . D 4 HOH A 162 1362 39 HOH HOH . D 4 HOH A 163 1363 112 HOH HOH . D 4 HOH A 164 1364 99 HOH HOH . D 4 HOH A 165 1365 135 HOH HOH . D 4 HOH A 166 1366 185 HOH HOH . D 4 HOH A 167 1367 74 HOH HOH . D 4 HOH A 168 1368 114 HOH HOH . D 4 HOH A 169 1369 178 HOH HOH . D 4 HOH A 170 1370 197 HOH HOH . D 4 HOH A 171 1371 100 HOH HOH . D 4 HOH A 172 1372 204 HOH HOH . D 4 HOH A 173 1373 199 HOH HOH . D 4 HOH A 174 1374 91 HOH HOH . D 4 HOH A 175 1375 139 HOH HOH . D 4 HOH A 176 1376 156 HOH HOH . D 4 HOH A 177 1377 150 HOH HOH . D 4 HOH A 178 1378 208 HOH HOH . D 4 HOH A 179 1379 90 HOH HOH . D 4 HOH A 180 1380 177 HOH HOH . D 4 HOH A 181 1381 92 HOH HOH . D 4 HOH A 182 1382 206 HOH HOH . D 4 HOH A 183 1383 24 HOH HOH . D 4 HOH A 184 1384 128 HOH HOH . D 4 HOH A 185 1385 207 HOH HOH . D 4 HOH A 186 1386 49 HOH HOH . D 4 HOH A 187 1387 111 HOH HOH . D 4 HOH A 188 1388 93 HOH HOH . D 4 HOH A 189 1389 77 HOH HOH . D 4 HOH A 190 1390 42 HOH HOH . D 4 HOH A 191 1391 119 HOH HOH . D 4 HOH A 192 1392 55 HOH HOH . D 4 HOH A 193 1393 165 HOH HOH . D 4 HOH A 194 1394 190 HOH HOH . D 4 HOH A 195 1395 52 HOH HOH . D 4 HOH A 196 1396 110 HOH HOH . D 4 HOH A 197 1397 168 HOH HOH . D 4 HOH A 198 1398 164 HOH HOH . D 4 HOH A 199 1399 70 HOH HOH . D 4 HOH A 200 1400 78 HOH HOH . D 4 HOH A 201 1401 147 HOH HOH . D 4 HOH A 202 1402 137 HOH HOH . D 4 HOH A 203 1403 186 HOH HOH . D 4 HOH A 204 1404 115 HOH HOH . D 4 HOH A 205 1405 103 HOH HOH . D 4 HOH A 206 1406 113 HOH HOH . D 4 HOH A 207 1407 187 HOH HOH . D 4 HOH A 208 1408 142 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 N N1 3YB . . . C 3 -22.279 16.858 23.754 1 13.87 ? N1 3YB 1102 A 1 HETATM 2 C C2 3YB . . . C 3 -21.859 15.835 24.5 1 16 ? C2 3YB 1102 A 1 HETATM 3 N N3 3YB . . . C 3 -22.588 14.71 24.602 1 16.9 ? N3 3YB 1102 A 1 HETATM 4 C C4 3YB . . . C 3 -23.762 14.557 23.94 1 16.48 ? C4 3YB 1102 A 1 HETATM 5 N N5 3YB . . . C 3 -24.028 17.657 22.289 1 12.78 ? N5 3YB 1102 A 1 HETATM 6 C C6 3YB . . . C 3 -25.18 17.152 21.805 1 16.63 ? C6 3YB 1102 A 1 HETATM 7 C C7 3YB . . . C 3 -25.352 15.876 22.336 1 14.31 ? C7 3YB 1102 A 1 HETATM 8 C C8 3YB . . . C 3 -24.228 15.615 23.152 1 14.49 ? C8 3YB 1102 A 1 HETATM 9 C C9 3YB . . . C 3 -23.439 16.775 23.076 1 13.79 ? C9 3YB 1102 A 1 HETATM 10 O O10 3YB . . . C 3 -24.366 13.488 24.079 1 17.03 ? O10 3YB 1102 A 1 HETATM 11 N N11 3YB . . . C 3 -20.628 15.923 25.219 1 17.41 ? N11 3YB 1102 A 1 HETATM 12 C C12 3YB . . . C 3 -22.964 17.015 16.682 1 25.82 ? C12 3YB 1102 A 1 HETATM 13 C C13 3YB . . . C 3 -21.731 16.691 16.204 1 29.44 ? C13 3YB 1102 A 1 HETATM 14 S S14 3YB . . . C 3 -21.662 14.993 16.334 1 28.65 ? S14 3YB 1102 A 1 HETATM 15 C C15 3YB . . . C 3 -23.209 14.707 17.002 1 28.6 ? C15 3YB 1102 A 1 HETATM 16 C C16 3YB . . . C 3 -23.781 15.938 17.113 1 27.37 ? C16 3YB 1102 A 1 HETATM 17 C C17 3YB . . . C 3 -20.703 17.586 15.716 1 33.59 ? C17 3YB 1102 A 1 HETATM 18 O O18 3YB . . . C 3 -19.716 17.105 15.182 1 33.93 ? O18 3YB 1102 A 1 HETATM 19 N N19 3YB . . . C 3 -20.832 19.006 15.888 1 36.7 ? N19 3YB 1102 A 1 HETATM 20 C C20 3YB . . . C 3 -19.883 19.871 15.458 1 39.32 ? C20 3YB 1102 A 1 HETATM 21 C C21 3YB . . . C 3 -20.457 20.959 14.756 1 41.84 ? C21 3YB 1102 A 1 HETATM 22 C C22 3YB . . . C 3 -21.691 20.556 14.028 1 46.64 ? C22 3YB 1102 A 1 HETATM 23 C C23 3YB . . . C 3 -22.348 21.774 13.465 1 51.04 ? C23 3YB 1102 A 1 HETATM 24 O O24 3YB . . . C 3 -22.202 22.896 14.029 1 52.54 ? O24 3YB 1102 A 1 HETATM 25 O O25 3YB . . . C 3 -23.05 21.674 12.424 1 51.33 ? O25 3YB 1102 A 1 HETATM 26 C C26 3YB . . . C 3 -19.157 20.411 16.546 1 39.42 ? C26 3YB 1102 A 1 HETATM 27 O O27 3YB . . . C 3 -17.967 20.788 16.371 1 41.51 ? O27 3YB 1102 A 1 HETATM 28 O O28 3YB . . . C 3 -19.677 20.54 17.691 1 32.81 ? O28 3YB 1102 A 1 HETATM 29 C C29 3YB . . . C 3 -26.106 17.878 20.888 1 18.54 ? C29 3YB 1102 A 1 HETATM 30 C C30 3YB . . . C 3 -26.284 17.092 19.623 1 22.27 ? C30 3YB 1102 A 1 HETATM 31 C C31 3YB . . . C 3 -24.975 16.951 18.935 1 24.36 ? C31 3YB 1102 A 1 HETATM 32 C C32 3YB . . . C 3 -25.144 16.166 17.668 1 27.85 ? C32 3YB 1102 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #