data_1LCA # _model_server_result.job_id yRmWMB6EkK7mGnn9ZQdZ9w _model_server_result.datetime_utc '2024-11-23 11:29:11' _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 1lca # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":317}' # _entry.id 1LCA # _exptl.entry_id 1LCA _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 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 1LCA _cell.length_a 78.7 _cell.length_b 78.7 _cell.length_c 230.1 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1LCA _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 1,2 # 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' 11_554 -x+y,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -115.05 # _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 '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 418 n n N1 C6 UMP sing 419 n n N1 C1' UMP sing 420 n n C2 N3 UMP sing 421 n n C2 O2 UMP doub 422 n n N3 C4 UMP sing 423 n n N3 HN3 UMP sing 424 n n C4 C5 UMP sing 425 n n C4 O4 UMP doub 426 n n C5 C6 UMP doub 427 n n C5 H5 UMP sing 428 n n C6 H6 UMP sing 429 n n C1' C2' UMP sing 430 n n C1' O4' UMP sing 431 n n C1' H1' UMP sing 432 n n C2' C3' UMP sing 433 n n C2' H2' UMP sing 434 n n C2' "H2''" UMP sing 435 n n C3' C4' UMP sing 436 n n C3' O3' UMP sing 437 n n C3' H3' UMP sing 438 n n C4' O4' UMP sing 439 n n C4' C5' UMP sing 440 n n C4' H4' UMP sing 441 n n O3' HO3' UMP sing 442 n n C5' O5' UMP sing 443 n n C5' H5' UMP sing 444 n n C5' "H5''" UMP sing 445 n n O5' P UMP sing 446 n n P OP1 UMP doub 447 n n P OP2 UMP sing 448 n n P OP3 UMP sing 449 n n OP2 HOP2 UMP sing 450 n n OP3 HOP3 UMP sing 451 n n # _atom_sites.entry_id 1LCA _atom_sites.fract_transf_matrix[1][1] 0.012706 _atom_sites.fract_transf_matrix[1][2] 0.007336 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014672 _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] 0.004346 _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 UMP A 1 317 317 UMP UMP . C 3 CB3 A 1 318 318 CB3 CB3 . D 4 HOH A 1 319 319 HOH HOH . D 4 HOH A 2 320 320 HOH HOH . D 4 HOH A 3 321 321 HOH HOH . D 4 HOH A 4 322 322 HOH HOH . D 4 HOH A 5 323 323 HOH HOH . D 4 HOH A 6 324 324 HOH HOH . D 4 HOH A 7 325 325 HOH HOH . D 4 HOH A 8 326 326 HOH HOH . D 4 HOH A 9 327 327 HOH HOH . D 4 HOH A 10 328 328 HOH HOH . D 4 HOH A 11 329 329 HOH HOH . D 4 HOH A 12 330 330 HOH HOH . D 4 HOH A 13 331 331 HOH HOH . D 4 HOH A 14 332 332 HOH HOH . D 4 HOH A 15 333 333 HOH HOH . D 4 HOH A 16 334 334 HOH HOH . D 4 HOH A 17 335 335 HOH HOH . D 4 HOH A 18 336 336 HOH HOH . D 4 HOH A 19 337 337 HOH HOH . D 4 HOH A 20 338 338 HOH HOH . D 4 HOH A 21 339 339 HOH HOH . D 4 HOH A 22 340 340 HOH HOH . D 4 HOH A 23 341 341 HOH HOH . D 4 HOH A 24 342 342 HOH HOH . D 4 HOH A 25 343 343 HOH HOH . D 4 HOH A 26 344 344 HOH HOH . D 4 HOH A 27 345 345 HOH HOH . D 4 HOH A 28 346 346 HOH HOH . D 4 HOH A 29 347 347 HOH HOH . D 4 HOH A 30 348 348 HOH HOH . D 4 HOH A 31 349 349 HOH HOH . D 4 HOH A 32 350 350 HOH HOH . D 4 HOH A 33 351 351 HOH HOH . D 4 HOH A 34 352 352 HOH HOH . D 4 HOH A 35 353 353 HOH HOH . D 4 HOH A 36 354 354 HOH HOH . D 4 HOH A 37 355 355 HOH HOH . D 4 HOH A 38 356 356 HOH HOH . D 4 HOH A 39 357 357 HOH HOH . D 4 HOH A 40 358 358 HOH HOH . D 4 HOH A 41 359 359 HOH HOH . D 4 HOH A 42 360 360 HOH HOH . D 4 HOH A 43 361 361 HOH HOH . D 4 HOH A 44 362 362 HOH HOH . D 4 HOH A 45 363 363 HOH HOH . D 4 HOH A 46 364 364 HOH HOH . D 4 HOH A 47 365 365 HOH HOH . D 4 HOH A 48 366 366 HOH HOH . D 4 HOH A 49 367 367 HOH HOH . D 4 HOH A 50 368 368 HOH HOH . D 4 HOH A 51 369 369 HOH HOH . D 4 HOH A 52 370 370 HOH HOH . D 4 HOH A 53 371 371 HOH HOH . D 4 HOH A 54 372 372 HOH HOH . D 4 HOH A 55 373 373 HOH HOH . D 4 HOH A 56 374 374 HOH HOH . D 4 HOH A 57 375 375 HOH HOH . D 4 HOH A 58 376 376 HOH HOH . D 4 HOH A 59 377 377 HOH HOH . D 4 HOH A 60 378 378 HOH HOH . D 4 HOH A 61 379 379 HOH HOH . D 4 HOH A 62 380 380 HOH HOH . D 4 HOH A 63 381 381 HOH HOH . D 4 HOH A 64 382 382 HOH HOH . D 4 HOH A 65 383 383 HOH HOH . D 4 HOH A 66 384 384 HOH HOH . D 4 HOH A 67 385 385 HOH HOH . D 4 HOH A 68 386 386 HOH HOH . D 4 HOH A 69 387 387 HOH HOH . D 4 HOH A 70 388 388 HOH HOH . D 4 HOH A 71 389 389 HOH HOH . D 4 HOH A 72 390 390 HOH HOH . D 4 HOH A 73 391 391 HOH HOH . D 4 HOH A 74 392 392 HOH HOH . D 4 HOH A 75 393 393 HOH HOH . D 4 HOH A 76 394 394 HOH HOH . D 4 HOH A 77 395 395 HOH HOH . D 4 HOH A 78 396 396 HOH HOH . D 4 HOH A 79 397 397 HOH HOH . D 4 HOH A 80 398 398 HOH HOH . D 4 HOH A 81 399 399 HOH HOH . D 4 HOH A 82 400 400 HOH HOH . D 4 HOH A 83 401 401 HOH HOH . D 4 HOH A 84 402 402 HOH HOH . D 4 HOH A 85 403 403 HOH HOH . D 4 HOH A 86 404 404 HOH HOH . D 4 HOH A 87 405 405 HOH HOH . D 4 HOH A 88 406 406 HOH HOH . D 4 HOH A 89 407 407 HOH HOH . D 4 HOH A 90 408 408 HOH HOH . D 4 HOH A 91 409 409 HOH HOH . D 4 HOH A 92 410 410 HOH HOH . D 4 HOH A 93 411 411 HOH HOH . D 4 HOH A 94 412 412 HOH HOH . D 4 HOH A 95 413 413 HOH HOH . D 4 HOH A 96 414 414 HOH HOH . D 4 HOH A 97 415 415 HOH HOH . D 4 HOH A 98 416 416 HOH HOH . D 4 HOH A 99 417 417 HOH HOH . D 4 HOH A 100 418 418 HOH HOH . D 4 HOH A 101 419 419 HOH HOH . D 4 HOH A 102 420 420 HOH HOH . D 4 HOH A 103 421 421 HOH HOH . D 4 HOH A 104 422 422 HOH HOH . D 4 HOH A 105 423 423 HOH HOH . D 4 HOH A 106 424 424 HOH HOH . D 4 HOH A 107 425 425 HOH HOH . D 4 HOH A 108 426 426 HOH HOH . D 4 HOH A 109 427 427 HOH HOH . D 4 HOH A 110 428 428 HOH HOH . D 4 HOH A 111 429 429 HOH HOH . D 4 HOH A 112 430 430 HOH HOH . D 4 HOH A 113 431 431 HOH HOH . D 4 HOH A 114 432 432 HOH HOH . D 4 HOH A 115 433 433 HOH HOH . D 4 HOH A 116 434 434 HOH HOH . D 4 HOH A 117 435 435 HOH HOH . D 4 HOH A 118 436 436 HOH HOH . D 4 HOH A 119 437 437 HOH HOH . D 4 HOH A 120 438 438 HOH HOH . D 4 HOH A 121 439 439 HOH HOH . D 4 HOH A 122 440 440 HOH HOH . D 4 HOH A 123 441 441 HOH HOH . D 4 HOH A 124 442 442 HOH HOH . D 4 HOH A 125 443 443 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 . . . B 2 14.768 46.687 -52.188 1 21.69 ? N1 UMP 317 A 1 HETATM 2 C C2 UMP . . . B 2 14.271 45.549 -51.498 1 21.69 ? C2 UMP 317 A 1 HETATM 3 N N3 UMP . . . B 2 13.872 45.806 -50.161 1 21.69 ? N3 UMP 317 A 1 HETATM 4 C C4 UMP . . . B 2 13.956 47.044 -49.465 1 21.69 ? C4 UMP 317 A 1 HETATM 5 C C5 UMP . . . B 2 14.473 48.126 -50.295 1 21.69 ? C5 UMP 317 A 1 HETATM 6 C C6 UMP . . . B 2 14.861 47.879 -51.622 1 21.69 ? C6 UMP 317 A 1 HETATM 7 O O2 UMP . . . B 2 14.248 44.384 -51.941 1 21.69 ? O2 UMP 317 A 1 HETATM 8 O O4 UMP . . . B 2 13.748 47.139 -48.232 1 21.69 ? O4 UMP 317 A 1 HETATM 9 C C1' UMP . . . B 2 15.273 46.653 -53.596 1 21.69 ? C1' UMP 317 A 1 HETATM 10 C C2' UMP . . . B 2 14.939 45.616 -54.688 1 21.69 ? C2' UMP 317 A 1 HETATM 11 C C3' UMP . . . B 2 15.702 46.082 -55.927 1 21.69 ? C3' UMP 317 A 1 HETATM 12 C C4' UMP . . . B 2 16.064 47.567 -55.595 1 21.69 ? C4' UMP 317 A 1 HETATM 13 O O3' UMP . . . B 2 16.886 45.27 -56.053 1 21.69 ? O3' UMP 317 A 1 HETATM 14 O O4' UMP . . . B 2 16.222 47.633 -54.169 1 21.69 ? O4' UMP 317 A 1 HETATM 15 C C5' UMP . . . B 2 14.997 48.575 -55.9 1 21.69 ? C5' UMP 317 A 1 HETATM 16 O O5' UMP . . . B 2 14.759 48.475 -57.309 1 21.69 ? O5' UMP 317 A 1 HETATM 17 P P UMP . . . B 2 15.748 49.162 -58.291 1 21.6 ? P UMP 317 A 1 HETATM 18 O OP1 UMP . . . B 2 16.005 50.515 -57.725 1 21.69 ? OP1 UMP 317 A 1 HETATM 19 O OP2 UMP . . . B 2 17.007 48.4 -58.543 1 21.69 ? OP2 UMP 317 A 1 HETATM 20 O OP3 UMP . . . B 2 14.994 49.247 -59.585 1 21.69 ? OP3 UMP 317 A 1 HETATM 21 H HN3 UMP . . . B 2 13.477 45.061 -49.653 1 15 ? HN3 UMP 317 A 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 21 #