data_1BD4 # _model_server_result.job_id '_lanD1eEPurAI0D-IFxFGA' _model_server_result.datetime_utc '2024-12-13 15:34:20' _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 1bd4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":999}' # _entry.id 1BD4 # _exptl.entry_id 1BD4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 112.087 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description URACIL _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 114.82 _cell.angle_gamma 90 _cell.entry_id 1BD4 _cell.length_a 60.39 _cell.length_b 141.77 _cell.length_c 71.46 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1BD4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 G N N ? 3 J N N ? 3 M N N ? 3 P N N # _chem_comp.formula 'C4 H4 N2 O2' _chem_comp.formula_weight 112.087 _chem_comp.id URA _chem_comp.mon_nstd_flag . _chem_comp.name URACIL _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 N1 C2 URA sing 362 n n N1 C6 URA sing 363 n n N1 HN1 URA sing 364 n n C2 O2 URA doub 365 n n C2 N3 URA sing 366 n n N3 C4 URA sing 367 n n N3 HN3 URA sing 368 n n C4 O4 URA doub 369 n n C4 C5 URA sing 370 n n C5 C6 URA doub 371 n n C5 H5 URA sing 372 n n C6 H6 URA sing 373 n n # _atom_sites.entry_id 1BD4 _atom_sites.fract_transf_matrix[1][1] 0.016559 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007658 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007054 _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] 0.015418 _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 E 2 PO4 D 1 799 799 PO4 PO4 . F 2 PO4 D 1 899 899 PO4 PO4 . G 3 URA D 1 999 999 URA URA . H 2 PO4 C 1 799 799 PO4 PO4 . I 2 PO4 C 1 899 899 PO4 PO4 . J 3 URA C 1 999 999 URA URA . K 2 PO4 B 1 799 799 PO4 PO4 . L 2 PO4 B 1 899 899 PO4 PO4 . M 3 URA B 1 999 999 URA URA . N 2 PO4 A 1 799 799 PO4 PO4 . O 2 PO4 A 1 899 899 PO4 PO4 . P 3 URA A 1 999 999 URA URA . Q 4 HOH D 1 1000 106 HOH HOH . Q 4 HOH D 2 1001 107 HOH HOH . Q 4 HOH D 3 1002 111 HOH HOH . Q 4 HOH D 4 1003 115 HOH HOH . Q 4 HOH D 5 1004 116 HOH HOH . Q 4 HOH D 6 1005 117 HOH HOH . Q 4 HOH D 7 1006 140 HOH HOH . Q 4 HOH D 8 1007 146 HOH HOH . Q 4 HOH D 9 1008 155 HOH HOH . Q 4 HOH D 10 1009 157 HOH HOH . Q 4 HOH D 11 1010 163 HOH HOH . Q 4 HOH D 12 1011 164 HOH HOH . Q 4 HOH D 13 1012 165 HOH HOH . Q 4 HOH D 14 1013 171 HOH HOH . Q 4 HOH D 15 1014 172 HOH HOH . Q 4 HOH D 16 1015 184 HOH HOH . Q 4 HOH D 17 1016 192 HOH HOH . Q 4 HOH D 18 1017 194 HOH HOH . Q 4 HOH D 19 1018 199 HOH HOH . Q 4 HOH D 20 1019 206 HOH HOH . Q 4 HOH D 21 1020 216 HOH HOH . Q 4 HOH D 22 1021 217 HOH HOH . Q 4 HOH D 23 1022 223 HOH HOH . Q 4 HOH D 24 1023 224 HOH HOH . Q 4 HOH D 25 1024 231 HOH HOH . Q 4 HOH D 26 1025 237 HOH HOH . Q 4 HOH D 27 1026 238 HOH HOH . Q 4 HOH D 28 1027 240 HOH HOH . Q 4 HOH D 29 1028 242 HOH HOH . Q 4 HOH D 30 1029 254 HOH HOH . Q 4 HOH D 31 1030 255 HOH HOH . Q 4 HOH D 32 1031 256 HOH HOH . Q 4 HOH D 33 1032 259 HOH HOH . Q 4 HOH D 34 1033 271 HOH HOH . Q 4 HOH D 35 1034 272 HOH HOH . Q 4 HOH D 36 1035 275 HOH HOH . Q 4 HOH D 37 1036 277 HOH HOH . Q 4 HOH D 38 1037 278 HOH HOH . Q 4 HOH D 39 1038 286 HOH HOH . Q 4 HOH D 40 1039 287 HOH HOH . Q 4 HOH D 41 1040 302 HOH HOH . Q 4 HOH D 42 1041 307 HOH HOH . Q 4 HOH D 43 1042 308 HOH HOH . Q 4 HOH D 44 1043 310 HOH HOH . Q 4 HOH D 45 1044 312 HOH HOH . Q 4 HOH D 46 1045 313 HOH HOH . Q 4 HOH D 47 1046 317 HOH HOH . Q 4 HOH D 48 1047 321 HOH HOH . Q 4 HOH D 49 1048 324 HOH HOH . Q 4 HOH D 50 1049 329 HOH HOH . Q 4 HOH D 51 1050 332 HOH HOH . Q 4 HOH D 52 1051 336 HOH HOH . Q 4 HOH D 53 1052 341 HOH HOH . R 4 HOH C 1 1000 103 HOH HOH . R 4 HOH C 2 1001 105 HOH HOH . R 4 HOH C 3 1002 108 HOH HOH . R 4 HOH C 4 1003 112 HOH HOH . R 4 HOH C 5 1004 123 HOH HOH . R 4 HOH C 6 1005 125 HOH HOH . R 4 HOH C 7 1006 128 HOH HOH . R 4 HOH C 8 1007 132 HOH HOH . R 4 HOH C 9 1008 134 HOH HOH . R 4 HOH C 10 1009 135 HOH HOH . R 4 HOH C 11 1010 142 HOH HOH . R 4 HOH C 12 1011 144 HOH HOH . R 4 HOH C 13 1012 145 HOH HOH . R 4 HOH C 14 1013 148 HOH HOH . R 4 HOH C 15 1014 154 HOH HOH . R 4 HOH C 16 1015 156 HOH HOH . R 4 HOH C 17 1016 159 HOH HOH . R 4 HOH C 18 1017 162 HOH HOH . R 4 HOH C 19 1018 167 HOH HOH . R 4 HOH C 20 1019 168 HOH HOH . R 4 HOH C 21 1020 170 HOH HOH . R 4 HOH C 22 1021 173 HOH HOH . R 4 HOH C 23 1022 174 HOH HOH . R 4 HOH C 24 1023 181 HOH HOH . R 4 HOH C 25 1024 182 HOH HOH . R 4 HOH C 26 1025 183 HOH HOH . R 4 HOH C 27 1026 185 HOH HOH . R 4 HOH C 28 1027 189 HOH HOH . R 4 HOH C 29 1028 191 HOH HOH . R 4 HOH C 30 1029 200 HOH HOH . R 4 HOH C 31 1030 201 HOH HOH . R 4 HOH C 32 1031 202 HOH HOH . R 4 HOH C 33 1032 205 HOH HOH . R 4 HOH C 34 1033 207 HOH HOH . R 4 HOH C 35 1034 208 HOH HOH . R 4 HOH C 36 1035 210 HOH HOH . R 4 HOH C 37 1036 211 HOH HOH . R 4 HOH C 38 1037 213 HOH HOH . R 4 HOH C 39 1038 225 HOH HOH . R 4 HOH C 40 1039 227 HOH HOH . R 4 HOH C 41 1040 232 HOH HOH . R 4 HOH C 42 1041 235 HOH HOH . R 4 HOH C 43 1042 243 HOH HOH . R 4 HOH C 44 1043 245 HOH HOH . R 4 HOH C 45 1044 246 HOH HOH . R 4 HOH C 46 1045 248 HOH HOH . R 4 HOH C 47 1046 251 HOH HOH . R 4 HOH C 48 1047 261 HOH HOH . R 4 HOH C 49 1048 262 HOH HOH . R 4 HOH C 50 1049 264 HOH HOH . R 4 HOH C 51 1050 265 HOH HOH . R 4 HOH C 52 1051 274 HOH HOH . R 4 HOH C 53 1052 276 HOH HOH . R 4 HOH C 54 1053 279 HOH HOH . R 4 HOH C 55 1054 280 HOH HOH . R 4 HOH C 56 1055 283 HOH HOH . R 4 HOH C 57 1056 285 HOH HOH . R 4 HOH C 58 1057 288 HOH HOH . R 4 HOH C 59 1058 292 HOH HOH . R 4 HOH C 60 1059 293 HOH HOH . R 4 HOH C 61 1060 297 HOH HOH . R 4 HOH C 62 1061 299 HOH HOH . R 4 HOH C 63 1062 304 HOH HOH . R 4 HOH C 64 1063 305 HOH HOH . R 4 HOH C 65 1064 311 HOH HOH . R 4 HOH C 66 1065 314 HOH HOH . R 4 HOH C 67 1066 315 HOH HOH . R 4 HOH C 68 1067 316 HOH HOH . R 4 HOH C 69 1068 323 HOH HOH . R 4 HOH C 70 1069 326 HOH HOH . R 4 HOH C 71 1070 333 HOH HOH . R 4 HOH C 72 1071 334 HOH HOH . R 4 HOH C 73 1072 338 HOH HOH . R 4 HOH C 74 1073 340 HOH HOH . S 4 HOH B 1 1000 100 HOH HOH . S 4 HOH B 2 1001 102 HOH HOH . S 4 HOH B 3 1002 109 HOH HOH . S 4 HOH B 4 1003 113 HOH HOH . S 4 HOH B 5 1004 114 HOH HOH . S 4 HOH B 6 1005 119 HOH HOH . S 4 HOH B 7 1006 121 HOH HOH . S 4 HOH B 8 1007 122 HOH HOH . S 4 HOH B 9 1008 124 HOH HOH . S 4 HOH B 10 1009 130 HOH HOH . S 4 HOH B 11 1010 131 HOH HOH . S 4 HOH B 12 1011 133 HOH HOH . S 4 HOH B 13 1012 138 HOH HOH . S 4 HOH B 14 1013 139 HOH HOH . S 4 HOH B 15 1014 147 HOH HOH . S 4 HOH B 16 1015 149 HOH HOH . S 4 HOH B 17 1016 151 HOH HOH . S 4 HOH B 18 1017 152 HOH HOH . S 4 HOH B 19 1018 158 HOH HOH . S 4 HOH B 20 1019 160 HOH HOH . S 4 HOH B 21 1020 161 HOH HOH . S 4 HOH B 22 1021 169 HOH HOH . S 4 HOH B 23 1022 175 HOH HOH . S 4 HOH B 24 1023 176 HOH HOH . S 4 HOH B 25 1024 177 HOH HOH . S 4 HOH B 26 1025 178 HOH HOH . S 4 HOH B 27 1026 186 HOH HOH . S 4 HOH B 28 1027 188 HOH HOH . S 4 HOH B 29 1028 198 HOH HOH . S 4 HOH B 30 1029 212 HOH HOH . S 4 HOH B 31 1030 218 HOH HOH . S 4 HOH B 32 1031 219 HOH HOH . S 4 HOH B 33 1032 220 HOH HOH . S 4 HOH B 34 1033 221 HOH HOH . S 4 HOH B 35 1034 222 HOH HOH . S 4 HOH B 36 1035 228 HOH HOH . S 4 HOH B 37 1036 234 HOH HOH . S 4 HOH B 38 1037 239 HOH HOH . S 4 HOH B 39 1038 241 HOH HOH . S 4 HOH B 40 1039 244 HOH HOH . S 4 HOH B 41 1040 252 HOH HOH . S 4 HOH B 42 1041 257 HOH HOH . S 4 HOH B 43 1042 258 HOH HOH . S 4 HOH B 44 1043 260 HOH HOH . S 4 HOH B 45 1044 263 HOH HOH . S 4 HOH B 46 1045 267 HOH HOH . S 4 HOH B 47 1046 268 HOH HOH . S 4 HOH B 48 1047 270 HOH HOH . S 4 HOH B 49 1048 281 HOH HOH . S 4 HOH B 50 1049 282 HOH HOH . S 4 HOH B 51 1050 284 HOH HOH . S 4 HOH B 52 1051 289 HOH HOH . S 4 HOH B 53 1052 290 HOH HOH . S 4 HOH B 54 1053 291 HOH HOH . S 4 HOH B 55 1054 294 HOH HOH . S 4 HOH B 56 1055 295 HOH HOH . S 4 HOH B 57 1056 298 HOH HOH . S 4 HOH B 58 1057 301 HOH HOH . S 4 HOH B 59 1058 303 HOH HOH . S 4 HOH B 60 1059 309 HOH HOH . S 4 HOH B 61 1060 319 HOH HOH . S 4 HOH B 62 1061 320 HOH HOH . S 4 HOH B 63 1062 325 HOH HOH . S 4 HOH B 64 1063 331 HOH HOH . S 4 HOH B 65 1064 335 HOH HOH . S 4 HOH B 66 1065 339 HOH HOH . T 4 HOH A 1 1000 101 HOH HOH . T 4 HOH A 2 1001 104 HOH HOH . T 4 HOH A 3 1002 110 HOH HOH . T 4 HOH A 4 1003 118 HOH HOH . T 4 HOH A 5 1004 120 HOH HOH . T 4 HOH A 6 1005 126 HOH HOH . T 4 HOH A 7 1006 127 HOH HOH . T 4 HOH A 8 1007 129 HOH HOH . T 4 HOH A 9 1008 136 HOH HOH . T 4 HOH A 10 1009 137 HOH HOH . T 4 HOH A 11 1010 141 HOH HOH . T 4 HOH A 12 1011 143 HOH HOH . T 4 HOH A 13 1012 150 HOH HOH . T 4 HOH A 14 1013 153 HOH HOH . T 4 HOH A 15 1014 166 HOH HOH . T 4 HOH A 16 1015 179 HOH HOH . T 4 HOH A 17 1016 180 HOH HOH . T 4 HOH A 18 1017 187 HOH HOH . T 4 HOH A 19 1018 190 HOH HOH . T 4 HOH A 20 1019 193 HOH HOH . T 4 HOH A 21 1020 195 HOH HOH . T 4 HOH A 22 1021 196 HOH HOH . T 4 HOH A 23 1022 197 HOH HOH . T 4 HOH A 24 1023 203 HOH HOH . T 4 HOH A 25 1024 204 HOH HOH . T 4 HOH A 26 1025 214 HOH HOH . T 4 HOH A 27 1026 215 HOH HOH . T 4 HOH A 28 1027 226 HOH HOH . T 4 HOH A 29 1028 229 HOH HOH . T 4 HOH A 30 1029 230 HOH HOH . T 4 HOH A 31 1030 236 HOH HOH . T 4 HOH A 32 1031 247 HOH HOH . T 4 HOH A 33 1032 249 HOH HOH . T 4 HOH A 34 1033 250 HOH HOH . T 4 HOH A 35 1034 253 HOH HOH . T 4 HOH A 36 1035 266 HOH HOH . T 4 HOH A 37 1036 269 HOH HOH . T 4 HOH A 38 1037 273 HOH HOH . T 4 HOH A 39 1038 296 HOH HOH . T 4 HOH A 40 1039 300 HOH HOH . T 4 HOH A 41 1040 306 HOH HOH . T 4 HOH A 42 1041 318 HOH HOH . T 4 HOH A 43 1042 322 HOH HOH . T 4 HOH A 44 1043 327 HOH HOH . T 4 HOH A 45 1044 328 HOH HOH . T 4 HOH A 46 1045 330 HOH HOH . T 4 HOH A 47 1046 337 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 URA . . . G 3 -10.735 92.506 91.074 1 34.1 ? N1 URA 999 D 1 HETATM 2 C C2 URA . . . G 3 -11.547 91.898 90.141 1 39.83 ? C2 URA 999 D 1 HETATM 3 O O2 URA . . . G 3 -11.383 90.791 89.67 1 26.53 ? O2 URA 999 D 1 HETATM 4 N N3 URA . . . G 3 -12.66 92.605 89.866 1 48.8 ? N3 URA 999 D 1 HETATM 5 C C4 URA . . . G 3 -13.004 93.873 90.296 1 57.21 ? C4 URA 999 D 1 HETATM 6 O O4 URA . . . G 3 -14.01 94.427 89.852 1 43.99 ? O4 URA 999 D 1 HETATM 7 C C5 URA . . . G 3 -12.125 94.448 91.285 1 21.57 ? C5 URA 999 D 1 HETATM 8 C C6 URA . . . G 3 -11.005 93.756 91.594 1 47.93 ? C6 URA 999 D 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 377 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 8 #