data_4ZYZ # _model_server_result.job_id BFTP38OqBfGQNgk07ylKkg _model_server_result.datetime_utc '2024-11-24 00:47:57' _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 4zyz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1102}' # _entry.id 4ZYZ # _exptl.entry_id 4ZYZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 407.421 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(S)-2-(7-(2-Amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-6-yl)heptanamido)pentanedioic 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 4ZYZ _cell.length_a 75.501 _cell.length_b 75.501 _cell.length_c 101.111 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZYZ _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 'C18 H25 N5 O6' _chem_comp.formula_weight 407.421 _chem_comp.id 3YD _chem_comp.mon_nstd_flag . _chem_comp.name '(S)-2-(7-(2-Amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-6-yl)heptanamido)pentanedioic 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 O24 C23 3YD doub 1 n n C23 C22 3YD sing 2 n n C23 O25 3YD sing 3 n n C22 C21 3YD sing 4 n n O18 C17 3YD doub 5 n n N19 C20 3YD sing 6 n n N19 C17 3YD sing 7 n n C21 C20 3YD sing 8 n n C20 C26 3YD sing 9 n n C17 C12 3YD sing 10 n n C12 C13 3YD sing 11 n n C13 C14 3YD sing 12 n n C26 O27 3YD doub 13 n n C26 O28 3YD sing 14 n n C14 C15 3YD sing 15 n n C15 C16 3YD sing 16 n n C16 C29 3YD sing 17 n n C29 C6 3YD sing 18 n n C6 N5 3YD sing 19 n y C6 C7 3YD doub 20 n y N5 C9 3YD sing 21 n y C7 C8 3YD sing 22 n y C9 C8 3YD doub 23 n y C9 N1 3YD sing 24 n n C8 C4 3YD sing 25 n n N1 C2 3YD doub 26 n n C4 O10 3YD doub 27 n n C4 N3 3YD sing 28 n n C2 N3 3YD sing 29 n n C2 N11 3YD sing 30 n n N3 H1 3YD sing 31 n n N5 H2 3YD sing 32 n n C7 H3 3YD sing 33 n n N11 H4 3YD sing 34 n n N11 H5 3YD sing 35 n n C12 H6 3YD sing 36 n n C12 H7 3YD sing 37 n n C13 H8 3YD sing 38 n n C13 H9 3YD sing 39 n n C14 H10 3YD sing 40 n n C14 H11 3YD sing 41 n n C15 H12 3YD sing 42 n n C15 H13 3YD sing 43 n n C16 H14 3YD sing 44 n n C16 H15 3YD sing 45 n n N19 H16 3YD sing 46 n n C20 H17 3YD sing 47 n n C21 H18 3YD sing 48 n n C21 H19 3YD sing 49 n n C22 H20 3YD sing 50 n n C22 H21 3YD sing 51 n n O25 H22 3YD sing 52 n n O28 H23 3YD sing 53 n n C29 H24 3YD sing 54 n n C29 H25 3YD sing 55 n n # _atom_sites.entry_id 4ZYZ _atom_sites.fract_transf_matrix[1][1] 0.013245 _atom_sites.fract_transf_matrix[1][2] 0.007647 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015294 _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] 0.00989 _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 3YD A 1 1102 1017 3YD 5GD . D 4 HOH A 1 1201 129 HOH HOH . D 4 HOH A 2 1202 91 HOH HOH . D 4 HOH A 3 1203 163 HOH HOH . D 4 HOH A 4 1204 183 HOH HOH . D 4 HOH A 5 1205 161 HOH HOH . D 4 HOH A 6 1206 196 HOH HOH . D 4 HOH A 7 1207 200 HOH HOH . D 4 HOH A 8 1208 108 HOH HOH . D 4 HOH A 9 1209 96 HOH HOH . D 4 HOH A 10 1210 168 HOH HOH . D 4 HOH A 11 1211 193 HOH HOH . D 4 HOH A 12 1212 24 HOH HOH . D 4 HOH A 13 1213 90 HOH HOH . D 4 HOH A 14 1214 71 HOH HOH . D 4 HOH A 15 1215 101 HOH HOH . D 4 HOH A 16 1216 67 HOH HOH . D 4 HOH A 17 1217 36 HOH HOH . D 4 HOH A 18 1218 47 HOH HOH . D 4 HOH A 19 1219 7 HOH HOH . D 4 HOH A 20 1220 104 HOH HOH . D 4 HOH A 21 1221 85 HOH HOH . D 4 HOH A 22 1222 93 HOH HOH . D 4 HOH A 23 1223 11 HOH HOH . D 4 HOH A 24 1224 125 HOH HOH . D 4 HOH A 25 1225 138 HOH HOH . D 4 HOH A 26 1226 137 HOH HOH . D 4 HOH A 27 1227 188 HOH HOH . D 4 HOH A 28 1228 109 HOH HOH . D 4 HOH A 29 1229 10 HOH HOH . D 4 HOH A 30 1230 102 HOH HOH . D 4 HOH A 31 1231 43 HOH HOH . D 4 HOH A 32 1232 6 HOH HOH . D 4 HOH A 33 1233 82 HOH HOH . D 4 HOH A 34 1234 2 HOH HOH . D 4 HOH A 35 1235 34 HOH HOH . D 4 HOH A 36 1236 144 HOH HOH . D 4 HOH A 37 1237 131 HOH HOH . D 4 HOH A 38 1238 68 HOH HOH . D 4 HOH A 39 1239 48 HOH HOH . D 4 HOH A 40 1240 27 HOH HOH . D 4 HOH A 41 1241 35 HOH HOH . D 4 HOH A 42 1242 187 HOH HOH . D 4 HOH A 43 1243 28 HOH HOH . D 4 HOH A 44 1244 190 HOH HOH . D 4 HOH A 45 1245 199 HOH HOH . D 4 HOH A 46 1246 197 HOH HOH . D 4 HOH A 47 1247 31 HOH HOH . D 4 HOH A 48 1248 194 HOH HOH . D 4 HOH A 49 1249 75 HOH HOH . D 4 HOH A 50 1250 195 HOH HOH . D 4 HOH A 51 1251 33 HOH HOH . D 4 HOH A 52 1252 55 HOH HOH . D 4 HOH A 53 1253 25 HOH HOH . D 4 HOH A 54 1254 175 HOH HOH . D 4 HOH A 55 1255 140 HOH HOH . D 4 HOH A 56 1256 126 HOH HOH . D 4 HOH A 57 1257 122 HOH HOH . D 4 HOH A 58 1258 9 HOH HOH . D 4 HOH A 59 1259 52 HOH HOH . D 4 HOH A 60 1260 49 HOH HOH . D 4 HOH A 61 1261 4 HOH HOH . D 4 HOH A 62 1262 3 HOH HOH . D 4 HOH A 63 1263 105 HOH HOH . D 4 HOH A 64 1264 39 HOH HOH . D 4 HOH A 65 1265 150 HOH HOH . D 4 HOH A 66 1266 30 HOH HOH . D 4 HOH A 67 1267 73 HOH HOH . D 4 HOH A 68 1268 21 HOH HOH . D 4 HOH A 69 1269 145 HOH HOH . D 4 HOH A 70 1270 20 HOH HOH . D 4 HOH A 71 1271 17 HOH HOH . D 4 HOH A 72 1272 40 HOH HOH . D 4 HOH A 73 1273 38 HOH HOH . D 4 HOH A 74 1274 23 HOH HOH . D 4 HOH A 75 1275 76 HOH HOH . D 4 HOH A 76 1276 113 HOH HOH . D 4 HOH A 77 1277 16 HOH HOH . D 4 HOH A 78 1278 5 HOH HOH . D 4 HOH A 79 1279 62 HOH HOH . D 4 HOH A 80 1280 98 HOH HOH . D 4 HOH A 81 1281 46 HOH HOH . D 4 HOH A 82 1282 99 HOH HOH . D 4 HOH A 83 1283 162 HOH HOH . D 4 HOH A 84 1284 114 HOH HOH . D 4 HOH A 85 1285 132 HOH HOH . D 4 HOH A 86 1286 157 HOH HOH . D 4 HOH A 87 1287 1 HOH HOH . D 4 HOH A 88 1288 63 HOH HOH . D 4 HOH A 89 1289 178 HOH HOH . D 4 HOH A 90 1290 156 HOH HOH . D 4 HOH A 91 1291 37 HOH HOH . D 4 HOH A 92 1292 61 HOH HOH . D 4 HOH A 93 1293 116 HOH HOH . D 4 HOH A 94 1294 128 HOH HOH . D 4 HOH A 95 1295 171 HOH HOH . D 4 HOH A 96 1296 44 HOH HOH . D 4 HOH A 97 1297 69 HOH HOH . D 4 HOH A 98 1298 154 HOH HOH . D 4 HOH A 99 1299 184 HOH HOH . D 4 HOH A 100 1300 127 HOH HOH . D 4 HOH A 101 1301 174 HOH HOH . D 4 HOH A 102 1302 50 HOH HOH . D 4 HOH A 103 1303 89 HOH HOH . D 4 HOH A 104 1304 18 HOH HOH . D 4 HOH A 105 1305 123 HOH HOH . D 4 HOH A 106 1306 53 HOH HOH . D 4 HOH A 107 1307 26 HOH HOH . D 4 HOH A 108 1308 94 HOH HOH . D 4 HOH A 109 1309 167 HOH HOH . D 4 HOH A 110 1310 124 HOH HOH . D 4 HOH A 111 1311 8 HOH HOH . D 4 HOH A 112 1312 14 HOH HOH . D 4 HOH A 113 1313 51 HOH HOH . D 4 HOH A 114 1314 100 HOH HOH . D 4 HOH A 115 1315 42 HOH HOH . D 4 HOH A 116 1316 203 HOH HOH . D 4 HOH A 117 1317 70 HOH HOH . D 4 HOH A 118 1318 180 HOH HOH . D 4 HOH A 119 1319 72 HOH HOH . D 4 HOH A 120 1320 112 HOH HOH . D 4 HOH A 121 1321 202 HOH HOH . D 4 HOH A 122 1322 54 HOH HOH . D 4 HOH A 123 1323 41 HOH HOH . D 4 HOH A 124 1324 29 HOH HOH . D 4 HOH A 125 1325 106 HOH HOH . D 4 HOH A 126 1326 13 HOH HOH . D 4 HOH A 127 1327 115 HOH HOH . D 4 HOH A 128 1328 64 HOH HOH . D 4 HOH A 129 1329 66 HOH HOH . D 4 HOH A 130 1330 130 HOH HOH . D 4 HOH A 131 1331 12 HOH HOH . D 4 HOH A 132 1332 78 HOH HOH . D 4 HOH A 133 1333 160 HOH HOH . D 4 HOH A 134 1334 19 HOH HOH . D 4 HOH A 135 1335 83 HOH HOH . D 4 HOH A 136 1336 45 HOH HOH . D 4 HOH A 137 1337 88 HOH HOH . D 4 HOH A 138 1338 182 HOH HOH . D 4 HOH A 139 1339 192 HOH HOH . D 4 HOH A 140 1340 110 HOH HOH . D 4 HOH A 141 1341 60 HOH HOH . D 4 HOH A 142 1342 97 HOH HOH . D 4 HOH A 143 1343 172 HOH HOH . D 4 HOH A 144 1344 79 HOH HOH . D 4 HOH A 145 1345 133 HOH HOH . D 4 HOH A 146 1346 177 HOH HOH . D 4 HOH A 147 1347 135 HOH HOH . D 4 HOH A 148 1348 185 HOH HOH . D 4 HOH A 149 1349 158 HOH HOH . D 4 HOH A 150 1350 155 HOH HOH . D 4 HOH A 151 1351 181 HOH HOH . D 4 HOH A 152 1352 191 HOH HOH . D 4 HOH A 153 1353 164 HOH HOH . D 4 HOH A 154 1354 107 HOH HOH . D 4 HOH A 155 1355 118 HOH HOH . D 4 HOH A 156 1356 179 HOH HOH . D 4 HOH A 157 1357 147 HOH HOH . D 4 HOH A 158 1358 81 HOH HOH . D 4 HOH A 159 1359 15 HOH HOH . D 4 HOH A 160 1360 103 HOH HOH . D 4 HOH A 161 1361 117 HOH HOH . D 4 HOH A 162 1362 176 HOH HOH . D 4 HOH A 163 1363 84 HOH HOH . D 4 HOH A 164 1364 198 HOH HOH . D 4 HOH A 165 1365 120 HOH HOH . D 4 HOH A 166 1366 189 HOH HOH . D 4 HOH A 167 1367 111 HOH HOH . D 4 HOH A 168 1368 95 HOH HOH . D 4 HOH A 169 1369 149 HOH HOH . D 4 HOH A 170 1370 159 HOH HOH . D 4 HOH A 171 1371 121 HOH HOH . D 4 HOH A 172 1372 22 HOH HOH . D 4 HOH A 173 1373 87 HOH HOH . D 4 HOH A 174 1374 173 HOH HOH . D 4 HOH A 175 1375 59 HOH HOH . D 4 HOH A 176 1376 166 HOH HOH . D 4 HOH A 177 1377 119 HOH HOH . D 4 HOH A 178 1378 165 HOH HOH . D 4 HOH A 179 1379 56 HOH HOH . D 4 HOH A 180 1380 143 HOH HOH . D 4 HOH A 181 1381 136 HOH HOH . D 4 HOH A 182 1382 134 HOH HOH . D 4 HOH A 183 1383 32 HOH HOH . D 4 HOH A 184 1384 80 HOH HOH . D 4 HOH A 185 1385 58 HOH HOH . D 4 HOH A 186 1386 57 HOH HOH . D 4 HOH A 187 1387 139 HOH HOH . D 4 HOH A 188 1388 152 HOH HOH . D 4 HOH A 189 1389 142 HOH HOH . D 4 HOH A 190 1390 153 HOH HOH . D 4 HOH A 191 1391 146 HOH HOH . D 4 HOH A 192 1392 65 HOH HOH . D 4 HOH A 193 1393 77 HOH HOH . D 4 HOH A 194 1394 186 HOH HOH . D 4 HOH A 195 1395 170 HOH HOH . D 4 HOH A 196 1396 169 HOH HOH . D 4 HOH A 197 1397 151 HOH HOH . D 4 HOH A 198 1398 201 HOH HOH . D 4 HOH A 199 1399 148 HOH HOH . D 4 HOH A 200 1400 141 HOH HOH . D 4 HOH A 201 1401 74 HOH HOH . D 4 HOH A 202 1402 86 HOH HOH . D 4 HOH A 203 1403 92 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 3YD . . . C 3 -22.371 16.952 23.89 1 16.24 ? N1 3YD 1102 A 1 HETATM 2 C C2 3YD . . . C 3 -21.959 15.888 24.674 1 17.85 ? C2 3YD 1102 A 1 HETATM 3 N N3 3YD . . . C 3 -22.753 14.712 24.769 1 15.91 ? N3 3YD 1102 A 1 HETATM 4 C C4 3YD . . . C 3 -23.909 14.564 24.016 1 15.42 ? C4 3YD 1102 A 1 HETATM 5 N N5 3YD . . . C 3 -24.212 17.577 22.345 1 17.2 ? N5 3YD 1102 A 1 HETATM 6 C C6 3YD . . . C 3 -25.253 17.084 21.879 1 19.53 ? C6 3YD 1102 A 1 HETATM 7 C C7 3YD . . . C 3 -25.406 15.912 22.358 1 16.16 ? C7 3YD 1102 A 1 HETATM 8 C C8 3YD . . . C 3 -24.34 15.589 23.237 1 14.66 ? C8 3YD 1102 A 1 HETATM 9 C C9 3YD . . . C 3 -23.49 16.811 23.203 1 15.71 ? C9 3YD 1102 A 1 HETATM 10 O O10 3YD . . . C 3 -24.503 13.504 24.135 1 17.84 ? O10 3YD 1102 A 1 HETATM 11 N N11 3YD . . . C 3 -20.762 15.981 25.438 1 19.34 ? N11 3YD 1102 A 1 HETATM 12 C C12 3YD . . . C 3 -22.002 18.275 16.936 1 42.27 ? C12 3YD 1102 A 1 HETATM 13 C C13 3YD . . . C 3 -22.968 17.075 17.078 1 38.77 ? C13 3YD 1102 A 1 HETATM 14 C C14 3YD . . . C 3 -24.369 17.532 17.556 1 36.17 ? C14 3YD 1102 A 1 HETATM 15 C C15 3YD . . . C 3 -24.49 17.378 19.08 1 25.95 ? C15 3YD 1102 A 1 HETATM 16 C C16 3YD . . . C 3 -25.971 17.213 19.475 1 24.63 ? C16 3YD 1102 A 1 HETATM 17 C C17 3YD . . . C 3 -20.921 17.91 15.887 1 53.03 ? C17 3YD 1102 A 1 HETATM 18 O O18 3YD . . . C 3 -20.99 16.806 15.394 1 53.58 ? O18 3YD 1102 A 1 HETATM 19 N N19 3YD . . . C 3 -19.835 18.772 15.444 1 54.71 ? N19 3YD 1102 A 1 HETATM 20 C C20 3YD . . . C 3 -19.491 20.126 15.841 1 55.11 ? C20 3YD 1102 A 1 HETATM 21 C C21 3YD . . . C 3 -20.634 21.093 15.685 1 58.9 ? C21 3YD 1102 A 1 HETATM 22 C C22 3YD . . . C 3 -20.827 21.546 14.242 1 62.34 ? C22 3YD 1102 A 1 HETATM 23 C C23 3YD . . . C 3 -22.112 22.349 14.173 1 64.38 ? C23 3YD 1102 A 1 HETATM 24 O O24 3YD . . . C 3 -23.186 21.787 13.823 1 65.6 ? O24 3YD 1102 A 1 HETATM 25 O O25 3YD . . . C 3 -22.111 23.573 14.468 1 62.97 ? O25 3YD 1102 A 1 HETATM 26 C C26 3YD . . . C 3 -18.966 20.194 17.254 1 53.91 ? C26 3YD 1102 A 1 HETATM 27 O O27 3YD . . . C 3 -17.82 19.758 17.516 1 57.41 ? O27 3YD 1102 A 1 HETATM 28 O O28 3YD . . . C 3 -19.665 20.709 18.17 1 45.17 ? O28 3YD 1102 A 1 HETATM 29 C C29 3YD . . . C 3 -26.218 17.762 20.89 1 23.53 ? C29 3YD 1102 A 1 # _model_server_stats.io_time_ms 100 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 260 _model_server_stats.encode_time_ms 20 _model_server_stats.element_count 29 #