data_4ZYV # _model_server_result.job_id bItKK3egIcbtjn_7CtWb2g _model_server_result.datetime_utc '2024-10-10 21:20:45' _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 4zyv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1101}' # _entry.id 4ZYV # _exptl.entry_id 4ZYV _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 4ZYV _cell.length_a 75.203 _cell.length_b 75.203 _cell.length_c 100.626 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZYV _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 140 n n C1 C2 GAR sing 141 n n C1 C5 GAR sing 142 n n C1 H1 GAR sing 143 n n O6 HO6 GAR sing 144 n n C2 O8 GAR sing 145 n n C2 C3 GAR sing 146 n n C2 H2 GAR sing 147 n n O8 HO8 GAR sing 148 n n C3 O4 GAR sing 149 n n C3 N19 GAR sing 150 n n C3 H3 GAR sing 151 n n O4 C5 GAR sing 152 n n C5 C10 GAR sing 153 n n C5 H5 GAR sing 154 n n C10 O12 GAR sing 155 n n C10 H101 GAR sing 156 n n C10 H102 GAR sing 157 n n O12 P15 GAR sing 158 n n N19 C21 GAR sing 159 n n N19 H19 GAR sing 160 n n C21 O22 GAR doub 161 n n C21 C23 GAR sing 162 n n C23 N24 GAR sing 163 n n C23 H231 GAR sing 164 n n C23 H232 GAR sing 165 n n N24 H241 GAR sing 166 n n N24 H242 GAR sing 167 n n P15 O16 GAR doub 168 n n P15 O17 GAR sing 169 n n P15 O18 GAR sing 170 n n # _atom_sites.entry_id 4ZYV _atom_sites.fract_transf_matrix[1][1] 0.013297 _atom_sites.fract_transf_matrix[1][2] 0.007677 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015354 _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] 0.009938 _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 1017 GAR GAR . C 3 G71 A 1 1102 1018 G71 G71 . D 4 HOH A 1 1201 17 HOH HOH . D 4 HOH A 2 1202 58 HOH HOH . D 4 HOH A 3 1203 105 HOH HOH . D 4 HOH A 4 1204 49 HOH HOH . D 4 HOH A 5 1205 11 HOH HOH . D 4 HOH A 6 1206 100 HOH HOH . D 4 HOH A 7 1207 72 HOH HOH . D 4 HOH A 8 1208 63 HOH HOH . D 4 HOH A 9 1209 104 HOH HOH . D 4 HOH A 10 1210 83 HOH HOH . D 4 HOH A 11 1211 46 HOH HOH . D 4 HOH A 12 1212 59 HOH HOH . D 4 HOH A 13 1213 64 HOH HOH . D 4 HOH A 14 1214 3 HOH HOH . D 4 HOH A 15 1215 32 HOH HOH . D 4 HOH A 16 1216 24 HOH HOH . D 4 HOH A 17 1217 9 HOH HOH . D 4 HOH A 18 1218 23 HOH HOH . D 4 HOH A 19 1219 20 HOH HOH . D 4 HOH A 20 1220 86 HOH HOH . D 4 HOH A 21 1221 48 HOH HOH . D 4 HOH A 22 1222 77 HOH HOH . D 4 HOH A 23 1223 2 HOH HOH . D 4 HOH A 24 1224 26 HOH HOH . D 4 HOH A 25 1225 5 HOH HOH . D 4 HOH A 26 1226 52 HOH HOH . D 4 HOH A 27 1227 44 HOH HOH . D 4 HOH A 28 1228 43 HOH HOH . D 4 HOH A 29 1229 61 HOH HOH . D 4 HOH A 30 1230 50 HOH HOH . D 4 HOH A 31 1231 42 HOH HOH . D 4 HOH A 32 1232 54 HOH HOH . D 4 HOH A 33 1233 13 HOH HOH . D 4 HOH A 34 1234 6 HOH HOH . D 4 HOH A 35 1235 102 HOH HOH . D 4 HOH A 36 1236 15 HOH HOH . D 4 HOH A 37 1237 27 HOH HOH . D 4 HOH A 38 1238 60 HOH HOH . D 4 HOH A 39 1239 107 HOH HOH . D 4 HOH A 40 1240 33 HOH HOH . D 4 HOH A 41 1241 36 HOH HOH . D 4 HOH A 42 1242 29 HOH HOH . D 4 HOH A 43 1243 21 HOH HOH . D 4 HOH A 44 1244 8 HOH HOH . D 4 HOH A 45 1245 7 HOH HOH . D 4 HOH A 46 1246 51 HOH HOH . D 4 HOH A 47 1247 79 HOH HOH . D 4 HOH A 48 1248 22 HOH HOH . D 4 HOH A 49 1249 14 HOH HOH . D 4 HOH A 50 1250 39 HOH HOH . D 4 HOH A 51 1251 45 HOH HOH . D 4 HOH A 52 1252 28 HOH HOH . D 4 HOH A 53 1253 30 HOH HOH . D 4 HOH A 54 1254 67 HOH HOH . D 4 HOH A 55 1255 47 HOH HOH . D 4 HOH A 56 1256 37 HOH HOH . D 4 HOH A 57 1257 41 HOH HOH . D 4 HOH A 58 1258 55 HOH HOH . D 4 HOH A 59 1259 71 HOH HOH . D 4 HOH A 60 1260 116 HOH HOH . D 4 HOH A 61 1261 4 HOH HOH . D 4 HOH A 62 1262 90 HOH HOH . D 4 HOH A 63 1263 10 HOH HOH . D 4 HOH A 64 1264 112 HOH HOH . D 4 HOH A 65 1265 31 HOH HOH . D 4 HOH A 66 1266 115 HOH HOH . D 4 HOH A 67 1267 85 HOH HOH . D 4 HOH A 68 1268 1 HOH HOH . D 4 HOH A 69 1269 78 HOH HOH . D 4 HOH A 70 1270 91 HOH HOH . D 4 HOH A 71 1271 62 HOH HOH . D 4 HOH A 72 1272 34 HOH HOH . D 4 HOH A 73 1273 93 HOH HOH . D 4 HOH A 74 1274 87 HOH HOH . D 4 HOH A 75 1275 84 HOH HOH . D 4 HOH A 76 1276 25 HOH HOH . D 4 HOH A 77 1277 108 HOH HOH . D 4 HOH A 78 1278 16 HOH HOH . D 4 HOH A 79 1279 35 HOH HOH . D 4 HOH A 80 1280 73 HOH HOH . D 4 HOH A 81 1281 70 HOH HOH . D 4 HOH A 82 1282 38 HOH HOH . D 4 HOH A 83 1283 75 HOH HOH . D 4 HOH A 84 1284 101 HOH HOH . D 4 HOH A 85 1285 68 HOH HOH . D 4 HOH A 86 1286 106 HOH HOH . D 4 HOH A 87 1287 18 HOH HOH . D 4 HOH A 88 1288 95 HOH HOH . D 4 HOH A 89 1289 40 HOH HOH . D 4 HOH A 90 1290 65 HOH HOH . D 4 HOH A 91 1291 74 HOH HOH . D 4 HOH A 92 1292 97 HOH HOH . D 4 HOH A 93 1293 114 HOH HOH . D 4 HOH A 94 1294 19 HOH HOH . D 4 HOH A 95 1295 82 HOH HOH . D 4 HOH A 96 1296 57 HOH HOH . D 4 HOH A 97 1297 53 HOH HOH . D 4 HOH A 98 1298 66 HOH HOH . D 4 HOH A 99 1299 99 HOH HOH . D 4 HOH A 100 1300 89 HOH HOH . D 4 HOH A 101 1301 118 HOH HOH . D 4 HOH A 102 1302 110 HOH HOH . D 4 HOH A 103 1303 111 HOH HOH . D 4 HOH A 104 1304 69 HOH HOH . D 4 HOH A 105 1305 94 HOH HOH . D 4 HOH A 106 1306 98 HOH HOH . D 4 HOH A 107 1307 12 HOH HOH . D 4 HOH A 108 1308 88 HOH HOH . D 4 HOH A 109 1309 80 HOH HOH . D 4 HOH A 110 1310 56 HOH HOH . D 4 HOH A 111 1311 103 HOH HOH . D 4 HOH A 112 1312 96 HOH HOH . D 4 HOH A 113 1313 92 HOH HOH . D 4 HOH A 114 1314 81 HOH HOH . D 4 HOH A 115 1315 109 HOH HOH . D 4 HOH A 116 1316 119 HOH HOH . D 4 HOH A 117 1317 76 HOH HOH . D 4 HOH A 118 1318 117 HOH HOH . D 4 HOH A 119 1319 113 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 3.292 48.353 69.124 1 32.67 ? C1 GAR 1101 A 1 HETATM 2 O O6 GAR . . . B 2 2.875 49.361 70.043 1 26.86 ? O6 GAR 1101 A 1 HETATM 3 C C2 GAR . . . B 2 4.272 48.952 68.13 1 32.51 ? C2 GAR 1101 A 1 HETATM 4 O O8 GAR . . . B 2 3.974 50.308 67.76 1 32.36 ? O8 GAR 1101 A 1 HETATM 5 C C3 GAR . . . B 2 5.587 48.847 68.883 1 31.6 ? C3 GAR 1101 A 1 HETATM 6 O O4 GAR . . . B 2 5.488 47.615 69.602 1 28.15 ? O4 GAR 1101 A 1 HETATM 7 C C5 GAR . . . B 2 4.112 47.326 69.891 1 31.06 ? C5 GAR 1101 A 1 HETATM 8 C C10 GAR . . . B 2 3.759 45.908 69.46 1 30.16 ? C10 GAR 1101 A 1 HETATM 9 O O12 GAR . . . B 2 2.457 45.536 69.921 1 35.33 ? O12 GAR 1101 A 1 HETATM 10 N N19 GAR . . . B 2 6.709 48.847 67.972 1 30.19 ? N19 GAR 1101 A 1 HETATM 11 C C21 GAR . . . B 2 7.845 49.479 68.258 1 38.93 ? C21 GAR 1101 A 1 HETATM 12 O O22 GAR . . . B 2 8.063 50.033 69.343 1 33.04 ? O22 GAR 1101 A 1 HETATM 13 C C23 GAR . . . B 2 8.854 49.442 67.125 1 40.31 ? C23 GAR 1101 A 1 HETATM 14 N N24 GAR . . . B 2 9.861 50.475 67.234 1 48.15 ? N24 GAR 1101 A 1 HETATM 15 P P15 GAR . . . B 2 1.688 44.258 69.285 1 31.45 ? P15 GAR 1101 A 1 HETATM 16 O O16 GAR . . . B 2 1.4 44.696 67.859 1 27.81 ? O16 GAR 1101 A 1 HETATM 17 O O17 GAR . . . B 2 0.484 44.085 70.187 1 26.71 ? O17 GAR 1101 A 1 HETATM 18 O O18 GAR . . . B 2 2.661 43.085 69.37 1 33.58 ? O18 GAR 1101 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 18 #