data_4ZYT # _model_server_result.job_id QGbHJJr5w51G1TQF2cgEEg _model_server_result.datetime_utc '2024-11-23 21:59:03' _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 4zyt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1101}' # _entry.id 4ZYT # _exptl.entry_id 4ZYT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.16 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'GLYCINAMIDE RIBONUCLEOTIDE' _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 4ZYT _cell.length_a 75.174 _cell.length_b 75.174 _cell.length_c 100.55 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZYT _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C7 H13 N2 O8 P -2' _chem_comp.formula_weight 284.16 _chem_comp.id GAR _chem_comp.mon_nstd_flag . _chem_comp.name 'GLYCINAMIDE RIBONUCLEOTIDE' _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 C1 O6 GAR sing 143 n n C1 C2 GAR sing 144 n n C1 C5 GAR sing 145 n n C1 H1 GAR sing 146 n n O6 HO6 GAR sing 147 n n C2 O8 GAR sing 148 n n C2 C3 GAR sing 149 n n C2 H2 GAR sing 150 n n O8 HO8 GAR sing 151 n n C3 O4 GAR sing 152 n n C3 N19 GAR sing 153 n n C3 H3 GAR sing 154 n n O4 C5 GAR sing 155 n n C5 C10 GAR sing 156 n n C5 H5 GAR sing 157 n n C10 O12 GAR sing 158 n n C10 H101 GAR sing 159 n n C10 H102 GAR sing 160 n n O12 P15 GAR sing 161 n n N19 C21 GAR sing 162 n n N19 H19 GAR sing 163 n n C21 O22 GAR doub 164 n n C21 C23 GAR sing 165 n n C23 N24 GAR sing 166 n n C23 H231 GAR sing 167 n n C23 H232 GAR sing 168 n n N24 H241 GAR sing 169 n n N24 H242 GAR sing 170 n n P15 O16 GAR doub 171 n n P15 O17 GAR sing 172 n n P15 O18 GAR sing 173 n n # _atom_sites.entry_id 4ZYT _atom_sites.fract_transf_matrix[1][1] 0.013302 _atom_sites.fract_transf_matrix[1][2] 0.00768 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01536 _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] 0.009945 _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 3Y9 A 1 1102 1017 3Y9 1GD . D 4 HOH A 1 1201 99 HOH HOH . D 4 HOH A 2 1202 54 HOH HOH . D 4 HOH A 3 1203 77 HOH HOH . D 4 HOH A 4 1204 101 HOH HOH . D 4 HOH A 5 1205 137 HOH HOH . D 4 HOH A 6 1206 60 HOH HOH . D 4 HOH A 7 1207 12 HOH HOH . D 4 HOH A 8 1208 9 HOH HOH . D 4 HOH A 9 1209 6 HOH HOH . D 4 HOH A 10 1210 38 HOH HOH . D 4 HOH A 11 1211 94 HOH HOH . D 4 HOH A 12 1212 49 HOH HOH . D 4 HOH A 13 1213 62 HOH HOH . D 4 HOH A 14 1214 66 HOH HOH . D 4 HOH A 15 1215 170 HOH HOH . D 4 HOH A 16 1216 39 HOH HOH . D 4 HOH A 17 1217 17 HOH HOH . D 4 HOH A 18 1218 114 HOH HOH . D 4 HOH A 19 1219 13 HOH HOH . D 4 HOH A 20 1220 136 HOH HOH . D 4 HOH A 21 1221 87 HOH HOH . D 4 HOH A 22 1222 41 HOH HOH . D 4 HOH A 23 1223 64 HOH HOH . D 4 HOH A 24 1224 51 HOH HOH . D 4 HOH A 25 1225 108 HOH HOH . D 4 HOH A 26 1226 31 HOH HOH . D 4 HOH A 27 1227 4 HOH HOH . D 4 HOH A 28 1228 30 HOH HOH . D 4 HOH A 29 1229 120 HOH HOH . D 4 HOH A 30 1230 16 HOH HOH . D 4 HOH A 31 1231 42 HOH HOH . D 4 HOH A 32 1232 26 HOH HOH . D 4 HOH A 33 1233 70 HOH HOH . D 4 HOH A 34 1234 1 HOH HOH . D 4 HOH A 35 1235 119 HOH HOH . D 4 HOH A 36 1236 63 HOH HOH . D 4 HOH A 37 1237 84 HOH HOH . D 4 HOH A 38 1238 44 HOH HOH . D 4 HOH A 39 1239 7 HOH HOH . D 4 HOH A 40 1240 68 HOH HOH . D 4 HOH A 41 1241 57 HOH HOH . D 4 HOH A 42 1242 33 HOH HOH . D 4 HOH A 43 1243 118 HOH HOH . D 4 HOH A 44 1244 133 HOH HOH . D 4 HOH A 45 1245 159 HOH HOH . D 4 HOH A 46 1246 83 HOH HOH . D 4 HOH A 47 1247 11 HOH HOH . D 4 HOH A 48 1248 93 HOH HOH . D 4 HOH A 49 1249 15 HOH HOH . D 4 HOH A 50 1250 27 HOH HOH . D 4 HOH A 51 1251 52 HOH HOH . D 4 HOH A 52 1252 69 HOH HOH . D 4 HOH A 53 1253 25 HOH HOH . D 4 HOH A 54 1254 90 HOH HOH . D 4 HOH A 55 1255 55 HOH HOH . D 4 HOH A 56 1256 18 HOH HOH . D 4 HOH A 57 1257 150 HOH HOH . D 4 HOH A 58 1258 113 HOH HOH . D 4 HOH A 59 1259 56 HOH HOH . D 4 HOH A 60 1260 5 HOH HOH . D 4 HOH A 61 1261 2 HOH HOH . D 4 HOH A 62 1262 106 HOH HOH . D 4 HOH A 63 1263 72 HOH HOH . D 4 HOH A 64 1264 175 HOH HOH . D 4 HOH A 65 1265 174 HOH HOH . D 4 HOH A 66 1266 37 HOH HOH . D 4 HOH A 67 1267 53 HOH HOH . D 4 HOH A 68 1268 135 HOH HOH . D 4 HOH A 69 1269 45 HOH HOH . D 4 HOH A 70 1270 19 HOH HOH . D 4 HOH A 71 1271 95 HOH HOH . D 4 HOH A 72 1272 154 HOH HOH . D 4 HOH A 73 1273 65 HOH HOH . D 4 HOH A 74 1274 100 HOH HOH . D 4 HOH A 75 1275 36 HOH HOH . D 4 HOH A 76 1276 117 HOH HOH . D 4 HOH A 77 1277 34 HOH HOH . D 4 HOH A 78 1278 156 HOH HOH . D 4 HOH A 79 1279 80 HOH HOH . D 4 HOH A 80 1280 61 HOH HOH . D 4 HOH A 81 1281 59 HOH HOH . D 4 HOH A 82 1282 144 HOH HOH . D 4 HOH A 83 1283 14 HOH HOH . D 4 HOH A 84 1284 107 HOH HOH . D 4 HOH A 85 1285 10 HOH HOH . D 4 HOH A 86 1286 165 HOH HOH . D 4 HOH A 87 1287 143 HOH HOH . D 4 HOH A 88 1288 76 HOH HOH . D 4 HOH A 89 1289 71 HOH HOH . D 4 HOH A 90 1290 20 HOH HOH . D 4 HOH A 91 1291 47 HOH HOH . D 4 HOH A 92 1292 50 HOH HOH . D 4 HOH A 93 1293 109 HOH HOH . D 4 HOH A 94 1294 88 HOH HOH . D 4 HOH A 95 1295 32 HOH HOH . D 4 HOH A 96 1296 67 HOH HOH . D 4 HOH A 97 1297 139 HOH HOH . D 4 HOH A 98 1298 103 HOH HOH . D 4 HOH A 99 1299 111 HOH HOH . D 4 HOH A 100 1300 86 HOH HOH . D 4 HOH A 101 1301 3 HOH HOH . D 4 HOH A 102 1302 123 HOH HOH . D 4 HOH A 103 1303 110 HOH HOH . D 4 HOH A 104 1304 82 HOH HOH . D 4 HOH A 105 1305 35 HOH HOH . D 4 HOH A 106 1306 8 HOH HOH . D 4 HOH A 107 1307 166 HOH HOH . D 4 HOH A 108 1308 98 HOH HOH . D 4 HOH A 109 1309 81 HOH HOH . D 4 HOH A 110 1310 131 HOH HOH . D 4 HOH A 111 1311 46 HOH HOH . D 4 HOH A 112 1312 168 HOH HOH . D 4 HOH A 113 1313 22 HOH HOH . D 4 HOH A 114 1314 43 HOH HOH . D 4 HOH A 115 1315 73 HOH HOH . D 4 HOH A 116 1316 132 HOH HOH . D 4 HOH A 117 1317 142 HOH HOH . D 4 HOH A 118 1318 115 HOH HOH . D 4 HOH A 119 1319 104 HOH HOH . D 4 HOH A 120 1320 151 HOH HOH . D 4 HOH A 121 1321 91 HOH HOH . D 4 HOH A 122 1322 105 HOH HOH . D 4 HOH A 123 1323 102 HOH HOH . D 4 HOH A 124 1324 112 HOH HOH . D 4 HOH A 125 1325 161 HOH HOH . D 4 HOH A 126 1326 96 HOH HOH . D 4 HOH A 127 1327 116 HOH HOH . D 4 HOH A 128 1328 158 HOH HOH . D 4 HOH A 129 1329 134 HOH HOH . D 4 HOH A 130 1330 152 HOH HOH . D 4 HOH A 131 1331 127 HOH HOH . D 4 HOH A 132 1332 146 HOH HOH . D 4 HOH A 133 1333 24 HOH HOH . D 4 HOH A 134 1334 171 HOH HOH . D 4 HOH A 135 1335 160 HOH HOH . D 4 HOH A 136 1336 121 HOH HOH . D 4 HOH A 137 1337 85 HOH HOH . D 4 HOH A 138 1338 172 HOH HOH . D 4 HOH A 139 1339 23 HOH HOH . D 4 HOH A 140 1340 169 HOH HOH . D 4 HOH A 141 1341 167 HOH HOH . D 4 HOH A 142 1342 157 HOH HOH . D 4 HOH A 143 1343 126 HOH HOH . D 4 HOH A 144 1344 155 HOH HOH . D 4 HOH A 145 1345 164 HOH HOH . D 4 HOH A 146 1346 140 HOH HOH . D 4 HOH A 147 1347 147 HOH HOH . D 4 HOH A 148 1348 129 HOH HOH . D 4 HOH A 149 1349 173 HOH HOH . D 4 HOH A 150 1350 58 HOH HOH . D 4 HOH A 151 1351 92 HOH HOH . D 4 HOH A 152 1352 74 HOH HOH . D 4 HOH A 153 1353 138 HOH HOH . D 4 HOH A 154 1354 89 HOH HOH . D 4 HOH A 155 1355 40 HOH HOH . D 4 HOH A 156 1356 149 HOH HOH . D 4 HOH A 157 1357 28 HOH HOH . D 4 HOH A 158 1358 21 HOH HOH . D 4 HOH A 159 1359 29 HOH HOH . D 4 HOH A 160 1360 48 HOH HOH . D 4 HOH A 161 1361 97 HOH HOH . D 4 HOH A 162 1362 162 HOH HOH . D 4 HOH A 163 1363 79 HOH HOH . D 4 HOH A 164 1364 130 HOH HOH . D 4 HOH A 165 1365 75 HOH HOH . D 4 HOH A 166 1366 128 HOH HOH . D 4 HOH A 167 1367 145 HOH HOH . D 4 HOH A 168 1368 78 HOH HOH . D 4 HOH A 169 1369 141 HOH HOH . D 4 HOH A 170 1370 124 HOH HOH . D 4 HOH A 171 1371 125 HOH HOH . D 4 HOH A 172 1372 163 HOH HOH . D 4 HOH A 173 1373 122 HOH HOH . D 4 HOH A 174 1374 148 HOH HOH . D 4 HOH A 175 1375 153 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 GAR . . . B 2 -34.294 16.753 14.825 0.85 13.55 ? C1 GAR 1101 A 1 HETATM 2 O O6 GAR . . . B 2 -34.616 15.699 13.908 0.85 16.83 ? O6 GAR 1101 A 1 HETATM 3 C C2 GAR . . . B 2 -33.309 16.232 15.845 0.85 13.41 ? C2 GAR 1101 A 1 HETATM 4 O O8 GAR . . . B 2 -33.595 14.908 16.292 0.85 15.53 ? O8 GAR 1101 A 1 HETATM 5 C C3 GAR . . . B 2 -32.008 16.279 15.06 0.85 11.1 ? C3 GAR 1101 A 1 HETATM 6 O O4 GAR . . . B 2 -32.092 17.536 14.4 0.85 13.43 ? O4 GAR 1101 A 1 HETATM 7 C C5 GAR . . . B 2 -33.473 17.799 14.086 0.85 11.92 ? C5 GAR 1101 A 1 HETATM 8 C C10 GAR . . . B 2 -33.854 19.182 14.577 0.85 11.85 ? C10 GAR 1101 A 1 HETATM 9 O O12 GAR . . . B 2 -35.119 19.551 14.044 0.85 13.76 ? O12 GAR 1101 A 1 HETATM 10 N N19 GAR . . . B 2 -30.862 16.194 15.932 0.85 12.01 ? N19 GAR 1101 A 1 HETATM 11 C C21 GAR . . . B 2 -29.756 15.56 15.56 0.85 16 ? C21 GAR 1101 A 1 HETATM 12 O O22 GAR . . . B 2 -29.585 15.116 14.424 0.85 15.32 ? O22 GAR 1101 A 1 HETATM 13 C C23 GAR . . . B 2 -28.718 15.445 16.648 0.85 22.29 ? C23 GAR 1101 A 1 HETATM 14 N N24 GAR . . . B 2 -27.514 14.788 16.185 0.85 35.76 ? N24 GAR 1101 A 1 HETATM 15 P P15 GAR . . . B 2 -35.925 20.801 14.679 0.85 12.89 ? P15 GAR 1101 A 1 HETATM 16 O O16 GAR . . . B 2 -37.133 20.921 13.772 0.85 10.73 ? O16 GAR 1101 A 1 HETATM 17 O O17 GAR . . . B 2 -34.979 21.985 14.607 0.85 14.66 ? O17 GAR 1101 A 1 HETATM 18 O O18 GAR . . . B 2 -36.199 20.385 16.104 0.85 12.08 ? O18 GAR 1101 A 1 # _model_server_stats.io_time_ms 35 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 18 #