data_1VZC # _model_server_result.job_id PmntkrWWG_DUa-qvqXl6MA _model_server_result.datetime_utc '2024-11-23 22:56:59' _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 1vzc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":317}' # _entry.id 1VZC # _exptl.entry_id 1VZC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 326.172 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5-FLUORO-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 1VZC _cell.length_a 79.5 _cell.length_b 79.5 _cell.length_c 229.1 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VZC _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 _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 -114.55 # _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 H12 F N2 O8 P' _chem_comp.formula_weight 326.172 _chem_comp.id UFP _chem_comp.mon_nstd_flag . _chem_comp.name "5-FLUORO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE" _chem_comp.type 'dna linking' _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 UFP sing 358 n n N1 C6 UFP sing 359 n n N1 C1' UFP sing 360 n n C2 N3 UFP sing 361 n n C2 O2 UFP doub 362 n n N3 C4 UFP sing 363 n n N3 HN3 UFP sing 364 n n C4 C5 UFP sing 365 n n C4 O4 UFP doub 366 n n C5 C6 UFP doub 367 n n C5 F5 UFP sing 368 n n C6 H6 UFP sing 369 n n C1' C2' UFP sing 370 n n C1' O4' UFP sing 371 n n C1' H1' UFP sing 372 n n C2' C3' UFP sing 373 n n C2' "H2'1" UFP sing 374 n n C2' "H2'2" UFP sing 375 n n C3' C4' UFP sing 376 n n C3' O3' UFP sing 377 n n C3' H3' UFP sing 378 n n C4' O4' UFP sing 379 n n C4' C5' UFP sing 380 n n C4' H4' UFP sing 381 n n O3' HO3' UFP sing 382 n n C5' O5' UFP sing 383 n n C5' "H5'1" UFP sing 384 n n C5' "H5'2" UFP sing 385 n n O5' P UFP sing 386 n n P O1P UFP doub 387 n n P O2P UFP sing 388 n n P O3P UFP sing 389 n n O2P HOP2 UFP sing 390 n n O3P HOP3 UFP sing 391 n n # _atom_sites.entry_id 1VZC _atom_sites.fract_transf_matrix[1][1] 0.012579 _atom_sites.fract_transf_matrix[1][2] 0.007262 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014525 _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] 0.004365 _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 UFP A 1 317 317 UFP UFP . C 3 HOH A 1 319 319 HOH HOH . C 3 HOH A 2 320 320 HOH HOH . C 3 HOH A 3 321 321 HOH HOH . C 3 HOH A 4 322 322 HOH HOH . C 3 HOH A 5 323 323 HOH HOH . C 3 HOH A 6 324 324 HOH HOH . C 3 HOH A 7 325 325 HOH HOH . C 3 HOH A 8 326 326 HOH HOH . C 3 HOH A 9 327 327 HOH HOH . C 3 HOH A 10 328 328 HOH HOH . C 3 HOH A 11 329 329 HOH HOH . C 3 HOH A 12 330 330 HOH HOH . C 3 HOH A 13 331 331 HOH HOH . C 3 HOH A 14 332 332 HOH HOH . C 3 HOH A 15 333 333 HOH HOH . C 3 HOH A 16 334 334 HOH HOH . C 3 HOH A 17 335 335 HOH HOH . C 3 HOH A 18 336 336 HOH HOH . C 3 HOH A 19 337 337 HOH HOH . C 3 HOH A 20 338 338 HOH HOH . C 3 HOH A 21 339 339 HOH HOH . C 3 HOH A 22 340 340 HOH HOH . C 3 HOH A 23 341 341 HOH HOH . C 3 HOH A 24 342 342 HOH HOH . C 3 HOH A 25 343 343 HOH HOH . C 3 HOH A 26 344 344 HOH HOH . C 3 HOH A 27 345 345 HOH HOH . C 3 HOH A 28 346 346 HOH HOH . C 3 HOH A 29 347 347 HOH HOH . C 3 HOH A 30 348 348 HOH HOH . C 3 HOH A 31 349 349 HOH HOH . C 3 HOH A 32 350 350 HOH HOH . C 3 HOH A 33 351 351 HOH HOH . C 3 HOH A 34 352 352 HOH HOH . C 3 HOH A 35 353 353 HOH HOH . C 3 HOH A 36 354 354 HOH HOH . C 3 HOH A 37 355 355 HOH HOH . C 3 HOH A 38 356 356 HOH HOH . C 3 HOH A 39 357 357 HOH HOH . C 3 HOH A 40 358 358 HOH HOH . C 3 HOH A 41 359 359 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 UFP . . . B 2 15.067 47.137 -51.781 1 26.69 ? N1 UFP 317 A 1 HETATM 2 C C2 UFP . . . B 2 14.101 46.269 -51.141 1 24.74 ? C2 UFP 317 A 1 HETATM 3 N N3 UFP . . . B 2 13.337 46.914 -50.149 1 24.71 ? N3 UFP 317 A 1 HETATM 4 C C4 UFP . . . B 2 13.434 48.268 -49.757 1 25.1 ? C4 UFP 317 A 1 HETATM 5 C C5 UFP . . . B 2 14.46 49.049 -50.465 1 26.34 ? C5 UFP 317 A 1 HETATM 6 C C6 UFP . . . B 2 15.237 48.434 -51.452 1 25.82 ? C6 UFP 317 A 1 HETATM 7 O O2 UFP . . . B 2 13.954 45.033 -51.3 1 21.92 ? O2 UFP 317 A 1 HETATM 8 O O4 UFP . . . B 2 12.695 48.717 -48.874 1 23.31 ? O4 UFP 317 A 1 HETATM 9 F F5 UFP . . . B 2 14.611 50.337 -50.233 1 13.56 ? F5 UFP 317 A 1 HETATM 10 C C1' UFP . . . B 2 15.852 46.748 -53.029 1 26.75 ? C1' UFP 317 A 1 HETATM 11 C C2' UFP . . . B 2 17.309 46.43 -52.808 1 27.55 ? C2' UFP 317 A 1 HETATM 12 C C3' UFP . . . B 2 18 46.751 -54.089 1 27.08 ? C3' UFP 317 A 1 HETATM 13 C C4' UFP . . . B 2 17.284 48.139 -54.314 1 26.56 ? C4' UFP 317 A 1 HETATM 14 O O3' UFP . . . B 2 19.435 46.846 -53.879 1 27.11 ? O3' UFP 317 A 1 HETATM 15 O O4' UFP . . . B 2 15.874 47.698 -54.189 1 28.2 ? O4' UFP 317 A 1 HETATM 16 C C5' UFP . . . B 2 17.453 48.792 -55.669 1 22.74 ? C5' UFP 317 A 1 HETATM 17 O O5' UFP . . . B 2 16.291 48.574 -56.593 1 19.17 ? O5' UFP 317 A 1 HETATM 18 P P UFP . . . B 2 16.049 49.549 -57.901 1 18.94 ? P UFP 317 A 1 HETATM 19 O O1P UFP . . . B 2 15.978 50.871 -57.223 1 16.07 ? O1P UFP 317 A 1 HETATM 20 O O2P UFP . . . B 2 17.233 49.381 -58.812 1 18.57 ? O2P UFP 317 A 1 HETATM 21 O O3P UFP . . . B 2 14.799 49.062 -58.53 1 17.1 ? O3P UFP 317 A 1 HETATM 22 H HN3 UFP . . . B 2 12.723 46.327 -49.664 1 15 ? HN3 UFP 317 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 244 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 22 #