data_3G4C # _model_server_result.job_id 20IWkwUztungH5Ys3kBAyg _model_server_result.datetime_utc '2024-11-24 15:23:33' _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 3g4c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":303}' # _entry.id 3G4C # _exptl.entry_id 3G4C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 308.182 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-DEOXYURIDINE 5'-MONOPHOSPHATE" _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 90 _cell.angle_gamma 90 _cell.entry_id 3G4C _cell.length_a 53.897 _cell.length_b 116.495 _cell.length_c 140.986 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3G4C _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 ? 2 E N N ? 2 G N N ? 2 J N N ? 2 L N N # _chem_comp.formula 'C9 H13 N2 O8 P' _chem_comp.formula_weight 308.182 _chem_comp.id UMP _chem_comp.mon_nstd_flag . _chem_comp.name "2'-DEOXYURIDINE 5'-MONOPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms DUMP # 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 UMP sing 449 n n N1 C6 UMP sing 450 n n N1 C1' UMP sing 451 n n C2 N3 UMP sing 452 n n C2 O2 UMP doub 453 n n N3 C4 UMP sing 454 n n N3 HN3 UMP sing 455 n n C4 C5 UMP sing 456 n n C4 O4 UMP doub 457 n n C5 C6 UMP doub 458 n n C5 H5 UMP sing 459 n n C6 H6 UMP sing 460 n n C1' C2' UMP sing 461 n n C1' O4' UMP sing 462 n n C1' H1' UMP sing 463 n n C2' C3' UMP sing 464 n n C2' H2' UMP sing 465 n n C2' "H2''" UMP sing 466 n n C3' C4' UMP sing 467 n n C3' O3' UMP sing 468 n n C3' H3' UMP sing 469 n n C4' O4' UMP sing 470 n n C4' C5' UMP sing 471 n n C4' H4' UMP sing 472 n n O3' HO3' UMP sing 473 n n C5' O5' UMP sing 474 n n C5' H5' UMP sing 475 n n C5' "H5''" UMP sing 476 n n O5' P UMP sing 477 n n P OP1 UMP doub 478 n n P OP2 UMP sing 479 n n P OP3 UMP sing 480 n n OP2 HOP2 UMP sing 481 n n OP3 HOP3 UMP sing 482 n n # _atom_sites.entry_id 3G4C _atom_sites.fract_transf_matrix[1][1] 0.018554 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008584 _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] 0.007093 _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 UMP A 1 303 303 UMP UMP . F 3 FAD A 1 315 315 FAD FAD . G 2 UMP B 1 308 308 UMP UMP . H 3 FAD B 1 310 310 FAD FAD . I 3 FAD C 1 305 305 FAD FAD . J 2 UMP C 1 313 313 UMP UMP . K 3 FAD D 1 300 300 FAD FAD . L 2 UMP D 1 318 318 UMP UMP . M 4 HOH A 1 222 2 HOH HOH . M 4 HOH A 2 223 93 HOH HOH . M 4 HOH A 3 233 13 HOH HOH . M 4 HOH A 4 236 16 HOH HOH . M 4 HOH A 5 237 17 HOH HOH . M 4 HOH A 6 239 19 HOH HOH . M 4 HOH A 7 242 22 HOH HOH . M 4 HOH A 8 243 23 HOH HOH . M 4 HOH A 9 246 26 HOH HOH . M 4 HOH A 10 248 28 HOH HOH . M 4 HOH A 11 251 31 HOH HOH . M 4 HOH A 12 264 44 HOH HOH . M 4 HOH A 13 271 51 HOH HOH . M 4 HOH A 14 272 52 HOH HOH . M 4 HOH A 15 276 56 HOH HOH . M 4 HOH A 16 277 57 HOH HOH . M 4 HOH A 17 278 58 HOH HOH . M 4 HOH A 18 280 60 HOH HOH . M 4 HOH A 19 283 63 HOH HOH . M 4 HOH A 20 285 65 HOH HOH . M 4 HOH A 21 289 69 HOH HOH . M 4 HOH A 22 291 71 HOH HOH . M 4 HOH A 23 292 72 HOH HOH . M 4 HOH A 24 295 75 HOH HOH . M 4 HOH A 25 304 84 HOH HOH . M 4 HOH A 26 306 85 HOH HOH . M 4 HOH A 27 310 89 HOH HOH . M 4 HOH A 28 319 97 HOH HOH . M 4 HOH A 29 320 98 HOH HOH . M 4 HOH A 30 323 101 HOH HOH . M 4 HOH A 31 324 102 HOH HOH . M 4 HOH A 32 330 108 HOH HOH . M 4 HOH A 33 333 111 HOH HOH . M 4 HOH A 34 335 113 HOH HOH . M 4 HOH A 35 348 126 HOH HOH . M 4 HOH A 36 353 131 HOH HOH . M 4 HOH A 37 355 133 HOH HOH . M 4 HOH A 38 356 134 HOH HOH . M 4 HOH A 39 357 135 HOH HOH . M 4 HOH A 40 370 148 HOH HOH . M 4 HOH A 41 377 155 HOH HOH . M 4 HOH A 42 378 156 HOH HOH . M 4 HOH A 43 380 158 HOH HOH . M 4 HOH A 44 383 161 HOH HOH . M 4 HOH A 45 387 165 HOH HOH . M 4 HOH A 46 389 167 HOH HOH . N 4 HOH B 1 221 1 HOH HOH . N 4 HOH B 2 225 5 HOH HOH . N 4 HOH B 3 228 8 HOH HOH . N 4 HOH B 4 230 10 HOH HOH . N 4 HOH B 5 232 12 HOH HOH . N 4 HOH B 6 245 25 HOH HOH . N 4 HOH B 7 252 32 HOH HOH . N 4 HOH B 8 255 35 HOH HOH . N 4 HOH B 9 257 37 HOH HOH . N 4 HOH B 10 259 39 HOH HOH . N 4 HOH B 11 261 41 HOH HOH . N 4 HOH B 12 262 42 HOH HOH . N 4 HOH B 13 265 45 HOH HOH . N 4 HOH B 14 266 46 HOH HOH . N 4 HOH B 15 274 54 HOH HOH . N 4 HOH B 16 281 61 HOH HOH . N 4 HOH B 17 290 70 HOH HOH . N 4 HOH B 18 293 73 HOH HOH . N 4 HOH B 19 298 78 HOH HOH . N 4 HOH B 20 299 79 HOH HOH . N 4 HOH B 21 300 80 HOH HOH . N 4 HOH B 22 302 82 HOH HOH . N 4 HOH B 23 312 91 HOH HOH . N 4 HOH B 24 316 94 HOH HOH . N 4 HOH B 25 325 103 HOH HOH . N 4 HOH B 26 326 104 HOH HOH . N 4 HOH B 27 336 114 HOH HOH . N 4 HOH B 28 342 120 HOH HOH . N 4 HOH B 29 343 121 HOH HOH . N 4 HOH B 30 345 123 HOH HOH . N 4 HOH B 31 349 127 HOH HOH . N 4 HOH B 32 354 132 HOH HOH . N 4 HOH B 33 358 136 HOH HOH . N 4 HOH B 34 359 137 HOH HOH . N 4 HOH B 35 360 138 HOH HOH . N 4 HOH B 36 364 142 HOH HOH . N 4 HOH B 37 366 144 HOH HOH . N 4 HOH B 38 368 146 HOH HOH . N 4 HOH B 39 369 147 HOH HOH . N 4 HOH B 40 374 152 HOH HOH . N 4 HOH B 41 375 153 HOH HOH . N 4 HOH B 42 382 160 HOH HOH . O 4 HOH C 1 229 9 HOH HOH . O 4 HOH C 2 231 11 HOH HOH . O 4 HOH C 3 234 14 HOH HOH . O 4 HOH C 4 235 15 HOH HOH . O 4 HOH C 5 238 18 HOH HOH . O 4 HOH C 6 241 21 HOH HOH . O 4 HOH C 7 244 24 HOH HOH . O 4 HOH C 8 250 30 HOH HOH . O 4 HOH C 9 253 33 HOH HOH . O 4 HOH C 10 254 34 HOH HOH . O 4 HOH C 11 256 36 HOH HOH . O 4 HOH C 12 267 47 HOH HOH . O 4 HOH C 13 268 48 HOH HOH . O 4 HOH C 14 270 50 HOH HOH . O 4 HOH C 15 273 53 HOH HOH . O 4 HOH C 16 275 55 HOH HOH . O 4 HOH C 17 284 64 HOH HOH . O 4 HOH C 18 286 66 HOH HOH . O 4 HOH C 19 288 68 HOH HOH . O 4 HOH C 20 294 74 HOH HOH . O 4 HOH C 21 296 76 HOH HOH . O 4 HOH C 22 301 81 HOH HOH . O 4 HOH C 23 303 83 HOH HOH . O 4 HOH C 24 308 87 HOH HOH . O 4 HOH C 25 311 90 HOH HOH . O 4 HOH C 26 314 92 HOH HOH . O 4 HOH C 27 317 95 HOH HOH . O 4 HOH C 28 322 100 HOH HOH . O 4 HOH C 29 327 105 HOH HOH . O 4 HOH C 30 328 106 HOH HOH . O 4 HOH C 31 329 107 HOH HOH . O 4 HOH C 32 331 109 HOH HOH . O 4 HOH C 33 334 112 HOH HOH . O 4 HOH C 34 337 115 HOH HOH . O 4 HOH C 35 340 118 HOH HOH . O 4 HOH C 36 341 119 HOH HOH . O 4 HOH C 37 346 124 HOH HOH . O 4 HOH C 38 351 129 HOH HOH . O 4 HOH C 39 352 130 HOH HOH . O 4 HOH C 40 361 139 HOH HOH . O 4 HOH C 41 362 140 HOH HOH . O 4 HOH C 42 365 143 HOH HOH . O 4 HOH C 43 367 145 HOH HOH . O 4 HOH C 44 376 154 HOH HOH . O 4 HOH C 45 381 159 HOH HOH . O 4 HOH C 46 386 164 HOH HOH . O 4 HOH C 47 388 166 HOH HOH . P 4 HOH D 1 223 3 HOH HOH . P 4 HOH D 2 224 4 HOH HOH . P 4 HOH D 3 225 96 HOH HOH . P 4 HOH D 4 226 6 HOH HOH . P 4 HOH D 5 227 7 HOH HOH . P 4 HOH D 6 240 20 HOH HOH . P 4 HOH D 7 247 27 HOH HOH . P 4 HOH D 8 249 29 HOH HOH . P 4 HOH D 9 258 38 HOH HOH . P 4 HOH D 10 260 40 HOH HOH . P 4 HOH D 11 263 43 HOH HOH . P 4 HOH D 12 269 49 HOH HOH . P 4 HOH D 13 279 59 HOH HOH . P 4 HOH D 14 282 62 HOH HOH . P 4 HOH D 15 287 67 HOH HOH . P 4 HOH D 16 297 77 HOH HOH . P 4 HOH D 17 307 86 HOH HOH . P 4 HOH D 18 309 88 HOH HOH . P 4 HOH D 19 321 99 HOH HOH . P 4 HOH D 20 332 110 HOH HOH . P 4 HOH D 21 338 116 HOH HOH . P 4 HOH D 22 339 117 HOH HOH . P 4 HOH D 23 344 122 HOH HOH . P 4 HOH D 24 347 125 HOH HOH . P 4 HOH D 25 350 128 HOH HOH . P 4 HOH D 26 363 141 HOH HOH . P 4 HOH D 27 371 149 HOH HOH . P 4 HOH D 28 372 150 HOH HOH . P 4 HOH D 29 373 151 HOH HOH . P 4 HOH D 30 379 157 HOH HOH . P 4 HOH D 31 384 162 HOH HOH . P 4 HOH D 32 385 163 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 UMP . . . E 2 43.005 52.672 128.914 1 32.68 ? N1 UMP 303 A 1 HETATM 2 C C2 UMP . . . E 2 43.238 51.264 128.899 1 31.7 ? C2 UMP 303 A 1 HETATM 3 N N3 UMP . . . E 2 44.423 50.801 129.502 1 30.59 ? N3 UMP 303 A 1 HETATM 4 C C4 UMP . . . E 2 45.341 51.695 130.079 1 31.54 ? C4 UMP 303 A 1 HETATM 5 C C5 UMP . . . E 2 45.041 53.173 130.008 1 32.2 ? C5 UMP 303 A 1 HETATM 6 C C6 UMP . . . E 2 43.994 53.576 129.492 1 33.48 ? C6 UMP 303 A 1 HETATM 7 O O2 UMP . . . E 2 42.412 50.514 128.396 1 30.4 ? O2 UMP 303 A 1 HETATM 8 O O4 UMP . . . E 2 46.378 51.238 130.605 1 31.41 ? O4 UMP 303 A 1 HETATM 9 C C1' UMP . . . E 2 41.768 53.109 128.252 1 32.25 ? C1' UMP 303 A 1 HETATM 10 C C2' UMP . . . E 2 40.558 52.681 129.049 1 33.43 ? C2' UMP 303 A 1 HETATM 11 C C3' UMP . . . E 2 39.714 53.921 129.17 1 34.59 ? C3' UMP 303 A 1 HETATM 12 C C4' UMP . . . E 2 40.699 55.05 128.901 1 36.03 ? C4' UMP 303 A 1 HETATM 13 O O3' UMP . . . E 2 38.677 53.912 128.185 1 35.67 ? O3' UMP 303 A 1 HETATM 14 O O4' UMP . . . E 2 41.783 54.512 128.16 1 34.39 ? O4' UMP 303 A 1 HETATM 15 C C5' UMP . . . E 2 41.258 55.712 130.16 1 36.41 ? C5' UMP 303 A 1 HETATM 16 O O5' UMP . . . E 2 41.7 54.725 131.08 1 38.37 ? O5' UMP 303 A 1 HETATM 17 P P UMP . . . E 2 42.62 55.164 132.321 1 40.36 ? P UMP 303 A 1 HETATM 18 O OP1 UMP . . . E 2 42.708 53.894 133.16 1 38.84 ? OP1 UMP 303 A 1 HETATM 19 O OP2 UMP . . . E 2 44.004 55.639 131.873 1 37.7 ? OP2 UMP 303 A 1 HETATM 20 O OP3 UMP . . . E 2 41.863 56.293 132.969 1 41.88 ? OP3 UMP 303 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 217 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #