data_7JG0 # _model_server_result.job_id gPp_nEzY03KyYGbz3F_uLg _model_server_result.datetime_utc '2024-11-14 14:01:18' _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 7jg0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1101}' # _entry.id 7JG0 # _exptl.entry_id 7JG0 _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 7JG0 _cell.length_a 75.232 _cell.length_b 75.232 _cell.length_c 99.955 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7JG0 _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_555 -x,-x+y,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 66.636667 # _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 83 n n C1 C2 GAR sing 84 n n C1 C5 GAR sing 85 n n C1 H1 GAR sing 86 n n O6 HO6 GAR sing 87 n n C2 O8 GAR sing 88 n n C2 C3 GAR sing 89 n n C2 H2 GAR sing 90 n n O8 HO8 GAR sing 91 n n C3 O4 GAR sing 92 n n C3 N19 GAR sing 93 n n C3 H3 GAR sing 94 n n O4 C5 GAR sing 95 n n C5 C10 GAR sing 96 n n C5 H5 GAR sing 97 n n C10 O12 GAR sing 98 n n C10 H101 GAR sing 99 n n C10 H102 GAR sing 100 n n O12 P15 GAR sing 101 n n N19 C21 GAR sing 102 n n N19 H19 GAR sing 103 n n C21 O22 GAR doub 104 n n C21 C23 GAR sing 105 n n C23 N24 GAR sing 106 n n C23 H231 GAR sing 107 n n C23 H232 GAR sing 108 n n N24 H241 GAR sing 109 n n N24 H242 GAR sing 110 n n P15 O16 GAR doub 111 n n P15 O17 GAR sing 112 n n P15 O18 GAR sing 113 n n # _atom_sites.entry_id 7JG0 _atom_sites.fract_transf_matrix[1][1] 0.013292 _atom_sites.fract_transf_matrix[1][2] 0.007674 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015349 _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] 0.010005 _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 1100 GAR GAR . C 3 V97 A 1 1102 1200 V97 G12 . D 4 HOH A 1 1201 51 HOH HOH . D 4 HOH A 2 1202 44 HOH HOH . D 4 HOH A 3 1203 41 HOH HOH . D 4 HOH A 4 1204 121 HOH HOH . D 4 HOH A 5 1205 110 HOH HOH . D 4 HOH A 6 1206 118 HOH HOH . D 4 HOH A 7 1207 1 HOH HOH . D 4 HOH A 8 1208 38 HOH HOH . D 4 HOH A 9 1209 42 HOH HOH . D 4 HOH A 10 1210 106 HOH HOH . D 4 HOH A 11 1211 52 HOH HOH . D 4 HOH A 12 1212 30 HOH HOH . D 4 HOH A 13 1213 49 HOH HOH . D 4 HOH A 14 1214 26 HOH HOH . D 4 HOH A 15 1215 103 HOH HOH . D 4 HOH A 16 1216 61 HOH HOH . D 4 HOH A 17 1217 57 HOH HOH . D 4 HOH A 18 1218 34 HOH HOH . D 4 HOH A 19 1219 32 HOH HOH . D 4 HOH A 20 1220 29 HOH HOH . D 4 HOH A 21 1221 54 HOH HOH . D 4 HOH A 22 1222 86 HOH HOH . D 4 HOH A 23 1223 64 HOH HOH . D 4 HOH A 24 1224 67 HOH HOH . D 4 HOH A 25 1225 120 HOH HOH . D 4 HOH A 26 1226 18 HOH HOH . D 4 HOH A 27 1227 62 HOH HOH . D 4 HOH A 28 1228 11 HOH HOH . D 4 HOH A 29 1229 15 HOH HOH . D 4 HOH A 30 1230 113 HOH HOH . D 4 HOH A 31 1231 10 HOH HOH . D 4 HOH A 32 1232 17 HOH HOH . D 4 HOH A 33 1233 72 HOH HOH . D 4 HOH A 34 1234 50 HOH HOH . D 4 HOH A 35 1235 23 HOH HOH . D 4 HOH A 36 1236 14 HOH HOH . D 4 HOH A 37 1237 16 HOH HOH . D 4 HOH A 38 1238 35 HOH HOH . D 4 HOH A 39 1239 5 HOH HOH . D 4 HOH A 40 1240 40 HOH HOH . D 4 HOH A 41 1241 4 HOH HOH . D 4 HOH A 42 1242 92 HOH HOH . D 4 HOH A 43 1243 56 HOH HOH . D 4 HOH A 44 1244 76 HOH HOH . D 4 HOH A 45 1245 39 HOH HOH . D 4 HOH A 46 1246 37 HOH HOH . D 4 HOH A 47 1247 13 HOH HOH . D 4 HOH A 48 1248 80 HOH HOH . D 4 HOH A 49 1249 19 HOH HOH . D 4 HOH A 50 1250 33 HOH HOH . D 4 HOH A 51 1251 9 HOH HOH . D 4 HOH A 52 1252 27 HOH HOH . D 4 HOH A 53 1253 24 HOH HOH . D 4 HOH A 54 1254 48 HOH HOH . D 4 HOH A 55 1255 46 HOH HOH . D 4 HOH A 56 1256 25 HOH HOH . D 4 HOH A 57 1257 22 HOH HOH . D 4 HOH A 58 1258 71 HOH HOH . D 4 HOH A 59 1259 43 HOH HOH . D 4 HOH A 60 1260 104 HOH HOH . D 4 HOH A 61 1261 98 HOH HOH . D 4 HOH A 62 1262 77 HOH HOH . D 4 HOH A 63 1263 107 HOH HOH . D 4 HOH A 64 1264 60 HOH HOH . D 4 HOH A 65 1265 28 HOH HOH . D 4 HOH A 66 1266 75 HOH HOH . D 4 HOH A 67 1267 69 HOH HOH . D 4 HOH A 68 1268 96 HOH HOH . D 4 HOH A 69 1269 3 HOH HOH . D 4 HOH A 70 1270 2 HOH HOH . D 4 HOH A 71 1271 102 HOH HOH . D 4 HOH A 72 1272 45 HOH HOH . D 4 HOH A 73 1273 31 HOH HOH . D 4 HOH A 74 1274 94 HOH HOH . D 4 HOH A 75 1275 53 HOH HOH . D 4 HOH A 76 1276 105 HOH HOH . D 4 HOH A 77 1277 78 HOH HOH . D 4 HOH A 78 1278 123 HOH HOH . D 4 HOH A 79 1279 20 HOH HOH . D 4 HOH A 80 1280 6 HOH HOH . D 4 HOH A 81 1281 84 HOH HOH . D 4 HOH A 82 1282 108 HOH HOH . D 4 HOH A 83 1283 79 HOH HOH . D 4 HOH A 84 1284 55 HOH HOH . D 4 HOH A 85 1285 47 HOH HOH . D 4 HOH A 86 1286 100 HOH HOH . D 4 HOH A 87 1287 101 HOH HOH . D 4 HOH A 88 1288 97 HOH HOH . D 4 HOH A 89 1289 7 HOH HOH . D 4 HOH A 90 1290 88 HOH HOH . D 4 HOH A 91 1291 114 HOH HOH . D 4 HOH A 92 1292 112 HOH HOH . D 4 HOH A 93 1293 70 HOH HOH . D 4 HOH A 94 1294 119 HOH HOH . D 4 HOH A 95 1295 74 HOH HOH . D 4 HOH A 96 1296 12 HOH HOH . D 4 HOH A 97 1297 83 HOH HOH . D 4 HOH A 98 1298 93 HOH HOH . D 4 HOH A 99 1299 63 HOH HOH . D 4 HOH A 100 1300 85 HOH HOH . D 4 HOH A 101 1301 73 HOH HOH . D 4 HOH A 102 1302 36 HOH HOH . D 4 HOH A 103 1303 21 HOH HOH . D 4 HOH A 104 1304 87 HOH HOH . D 4 HOH A 105 1305 124 HOH HOH . D 4 HOH A 106 1306 8 HOH HOH . D 4 HOH A 107 1307 125 HOH HOH . D 4 HOH A 108 1308 89 HOH HOH . D 4 HOH A 109 1309 99 HOH HOH . D 4 HOH A 110 1310 68 HOH HOH . D 4 HOH A 111 1311 81 HOH HOH . D 4 HOH A 112 1312 66 HOH HOH . D 4 HOH A 113 1313 122 HOH HOH . D 4 HOH A 114 1314 91 HOH HOH . D 4 HOH A 115 1315 82 HOH HOH . D 4 HOH A 116 1316 59 HOH HOH . D 4 HOH A 117 1317 58 HOH HOH . D 4 HOH A 118 1318 95 HOH HOH . D 4 HOH A 119 1319 111 HOH HOH . D 4 HOH A 120 1320 109 HOH HOH . D 4 HOH A 121 1321 90 HOH HOH . D 4 HOH A 122 1322 65 HOH HOH . D 4 HOH A 123 1323 115 HOH HOH . D 4 HOH A 124 1324 116 HOH HOH . D 4 HOH A 125 1325 117 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 -31.67 21.396 35.439 1 24.54 ? C1 GAR 1101 A 1 HETATM 2 O O6 GAR . . . B 2 -30.993 22.258 36.346 1 28.9 ? O6 GAR 1101 A 1 HETATM 3 C C2 GAR . . . B 2 -30.632 20.83 34.458 1 26.6 ? C2 GAR 1101 A 1 HETATM 4 O O8 GAR . . . B 2 -29.63 21.76 34.118 1 35.44 ? O8 GAR 1101 A 1 HETATM 5 C C3 GAR . . . B 2 -30.132 19.609 35.251 1 26.46 ? C3 GAR 1101 A 1 HETATM 6 O O4 GAR . . . B 2 -31.292 19.093 35.935 1 26.45 ? O4 GAR 1101 A 1 HETATM 7 C C5 GAR . . . B 2 -32.212 20.167 36.175 1 24.27 ? C5 GAR 1101 A 1 HETATM 8 C C10 GAR . . . B 2 -33.582 19.76 35.678 1 22.03 ? C10 GAR 1101 A 1 HETATM 9 O O12 GAR . . . B 2 -34.555 20.672 36.178 1 25.37 ? O12 GAR 1101 A 1 HETATM 10 N N19 GAR . . . B 2 -29.56 18.601 34.415 1 29.63 ? N19 GAR 1101 A 1 HETATM 11 C C21 GAR . . . B 2 -28.404 18.006 34.717 1 35.81 ? C21 GAR 1101 A 1 HETATM 12 O O22 GAR . . . B 2 -27.814 18.154 35.787 1 30.11 ? O22 GAR 1101 A 1 HETATM 13 C C23 GAR . . . B 2 -27.891 17.11 33.61 1 45.05 ? C23 GAR 1101 A 1 HETATM 14 N N24 GAR . . . B 2 -26.471 16.851 33.732 1 62.78 ? N24 GAR 1101 A 1 HETATM 15 P P15 GAR . . . B 2 -36.024 20.65 35.541 1 24.78 ? P15 GAR 1101 A 1 HETATM 16 O O16 GAR . . . B 2 -35.806 21.107 34.102 1 23.5 ? O16 GAR 1101 A 1 HETATM 17 O O17 GAR . . . B 2 -36.495 19.213 35.621 1 23.35 ? O17 GAR 1101 A 1 HETATM 18 O O18 GAR . . . B 2 -36.797 21.615 36.413 1 21.69 ? O18 GAR 1101 A 1 HETATM 19 H H1 GAR . . . B 2 -32.474 21.969 34.957 1 29.45 ? H1 GAR 1101 A 1 HETATM 20 H HO6 GAR . . . B 2 -31.305 23.165 36.222 1 34.68 ? HO6 GAR 1101 A 1 HETATM 21 H H2 GAR . . . B 2 -31.021 20.578 33.461 1 31.92 ? H2 GAR 1101 A 1 HETATM 22 H HO8 GAR . . . B 2 -28.979 21.337 33.543 1 42.53 ? HO8 GAR 1101 A 1 HETATM 23 H H3 GAR . . . B 2 -29.328 19.91 35.936 1 31.76 ? H3 GAR 1101 A 1 HETATM 24 H H5 GAR . . . B 2 -32.308 20.4 37.245 1 29.12 ? H5 GAR 1101 A 1 HETATM 25 H H101 GAR . . . B 2 -33.597 19.762 34.586 1 26.43 ? H101 GAR 1101 A 1 HETATM 26 H H102 GAR . . . B 2 -33.814 18.747 36.015 1 26.43 ? H102 GAR 1101 A 1 HETATM 27 H H19 GAR . . . B 2 -30.054 18.34 33.573 1 35.55 ? H19 GAR 1101 A 1 HETATM 28 H H231 GAR . . . B 2 -28.088 17.583 32.645 1 54.06 ? H231 GAR 1101 A 1 HETATM 29 H H232 GAR . . . B 2 -28.432 16.162 33.635 1 54.06 ? H232 GAR 1101 A 1 HETATM 30 H H241 GAR . . . B 2 -25.948 17.256 34.496 1 75.34 ? H241 GAR 1101 A 1 HETATM 31 H H242 GAR . . . B 2 -26.004 16.266 33.055 1 75.34 ? H242 GAR 1101 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 370 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 31 #