data_1BO7 # _model_server_result.job_id PvqQ94xmATxn-2QrZJHeCw _model_server_result.datetime_utc '2024-12-26 15:29:25' _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 1bo7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":317}' # _entry.id 1BO7 # _exptl.entry_id 1BO7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 324.181 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "URIDINE-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 1BO7 _cell.length_a 78.7 _cell.length_b 78.7 _cell.length_c 240.9 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1BO7 _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 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 _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 -120.45 # _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 O9 P' _chem_comp.formula_weight 324.181 _chem_comp.id U5P _chem_comp.mon_nstd_flag . _chem_comp.name "URIDINE-5'-MONOPHOSPHATE" _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 U5P sing 358 n n N1 C6 U5P sing 359 n n N1 C1' U5P sing 360 n n C2 N3 U5P sing 361 n n C2 O2 U5P doub 362 n n N3 C4 U5P sing 363 n n N3 HN3 U5P sing 364 n n C4 C5 U5P sing 365 n n C4 O4 U5P doub 366 n n C5 C6 U5P doub 367 n n C5 H5 U5P sing 368 n n C6 H6 U5P sing 369 n n C1' C2' U5P sing 370 n n C1' O4' U5P sing 371 n n C1' H1' U5P sing 372 n n C2' O2' U5P sing 373 n n C2' C3' U5P sing 374 n n C2' H2' U5P sing 375 n n O2' HO2' U5P sing 376 n n C3' C4' U5P sing 377 n n C3' O3' U5P sing 378 n n C3' H3' U5P sing 379 n n C4' O4' U5P sing 380 n n C4' C5' U5P sing 381 n n C4' H4' U5P sing 382 n n O3' HO3' U5P sing 383 n n C5' O5' U5P sing 384 n n C5' "H5'1" U5P sing 385 n n C5' "H5'2" U5P sing 386 n n O5' P U5P sing 387 n n P O1P U5P doub 388 n n P O2P U5P sing 389 n n P O3P U5P sing 390 n n O2P HOP2 U5P sing 391 n n O3P HOP3 U5P sing 392 n n # _atom_sites.entry_id 1BO7 _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] 0.004151 _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 U5P A 1 317 317 U5P DUM . C 3 HOH A 1 318 1 HOH HOH . C 3 HOH A 2 319 2 HOH HOH . C 3 HOH A 3 320 3 HOH HOH . C 3 HOH A 4 321 4 HOH HOH . C 3 HOH A 5 322 5 HOH HOH . C 3 HOH A 6 323 6 HOH HOH . C 3 HOH A 7 324 7 HOH HOH . C 3 HOH A 8 325 8 HOH HOH . C 3 HOH A 9 326 9 HOH HOH . C 3 HOH A 10 327 10 HOH HOH . C 3 HOH A 11 328 11 HOH HOH . C 3 HOH A 12 329 12 HOH HOH . C 3 HOH A 13 330 13 HOH HOH . C 3 HOH A 14 331 14 HOH HOH . C 3 HOH A 15 332 15 HOH HOH . C 3 HOH A 16 333 16 HOH HOH . C 3 HOH A 17 334 17 HOH HOH . C 3 HOH A 18 335 18 HOH HOH . C 3 HOH A 19 336 19 HOH HOH . C 3 HOH A 20 337 20 HOH HOH . C 3 HOH A 21 338 21 HOH HOH . C 3 HOH A 22 339 22 HOH HOH . C 3 HOH A 23 340 24 HOH HOH . C 3 HOH A 24 341 25 HOH HOH . C 3 HOH A 25 342 26 HOH HOH . C 3 HOH A 26 343 27 HOH HOH . C 3 HOH A 27 344 28 HOH HOH . C 3 HOH A 28 345 29 HOH HOH . C 3 HOH A 29 346 30 HOH HOH . C 3 HOH A 30 347 31 HOH HOH . C 3 HOH A 31 348 32 HOH HOH . C 3 HOH A 32 349 33 HOH HOH . C 3 HOH A 33 350 34 HOH HOH . C 3 HOH A 34 351 35 HOH HOH . C 3 HOH A 35 352 36 HOH HOH . C 3 HOH A 36 353 37 HOH HOH . C 3 HOH A 37 354 38 HOH HOH . C 3 HOH A 38 355 39 HOH HOH . C 3 HOH A 39 356 40 HOH HOH . C 3 HOH A 40 357 41 HOH HOH . C 3 HOH A 41 358 42 HOH HOH . C 3 HOH A 42 359 43 HOH HOH . C 3 HOH A 43 360 44 HOH HOH . C 3 HOH A 44 361 45 HOH HOH . C 3 HOH A 45 362 46 HOH HOH . C 3 HOH A 46 363 47 HOH HOH . C 3 HOH A 47 364 48 HOH HOH . C 3 HOH A 48 365 49 HOH HOH . C 3 HOH A 49 366 50 HOH HOH . C 3 HOH A 50 367 51 HOH HOH . C 3 HOH A 51 368 52 HOH HOH . C 3 HOH A 52 369 53 HOH HOH . C 3 HOH A 53 370 54 HOH HOH . C 3 HOH A 54 371 55 HOH HOH . C 3 HOH A 55 372 56 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 U5P . . . B 2 14.449 48.5 -53.8 1 28.15 ? N1 U5P 317 A 1 HETATM 2 C C2 U5P . . . B 2 13.752 47.509 -53.146 1 28.39 ? C2 U5P 317 A 1 HETATM 3 N N3 U5P . . . B 2 12.94 47.83 -52.063 1 33.25 ? N3 U5P 317 A 1 HETATM 4 C C4 U5P . . . B 2 12.775 49.148 -51.581 1 32.3 ? C4 U5P 317 A 1 HETATM 5 C C5 U5P . . . B 2 13.53 50.161 -52.324 1 30.22 ? C5 U5P 317 A 1 HETATM 6 C C6 U5P . . . B 2 14.35 49.78 -53.428 1 31.6 ? C6 U5P 317 A 1 HETATM 7 O O2 U5P . . . B 2 13.84 46.356 -53.498 1 33.05 ? O2 U5P 317 A 1 HETATM 8 O O4 U5P . . . B 2 12.037 49.396 -50.632 1 31.17 ? O4 U5P 317 A 1 HETATM 9 C C1' U5P . . . B 2 15.471 48.19 -54.77 1 25.43 ? C1' U5P 317 A 1 HETATM 10 C C2' U5P . . . B 2 15.021 47.941 -56.206 1 27.32 ? C2' U5P 317 A 1 HETATM 11 C C3' U5P . . . B 2 16.302 48.182 -56.996 1 29.07 ? C3' U5P 317 A 1 HETATM 12 C C4' U5P . . . B 2 16.915 49.459 -56.406 1 28.9 ? C4' U5P 317 A 1 HETATM 13 O O3' U5P . . . B 2 17.2 47.1 -56.761 1 25.2 ? O3' U5P 317 A 1 HETATM 14 O O4' U5P . . . B 2 16.478 49.289 -54.951 1 28.27 ? O4' U5P 317 A 1 HETATM 15 C C5' U5P . . . B 2 16.239 50.702 -56.996 1 27.97 ? C5' U5P 317 A 1 HETATM 16 O O5' U5P . . . B 2 16.666 50.734 -58.387 1 28.2 ? O5' U5P 317 A 1 HETATM 17 P P U5P . . . B 2 15.855 51.41 -59.51 1 29.66 ? P U5P 317 A 1 HETATM 18 O O1P U5P . . . B 2 16.584 51.353 -60.825 1 22.79 ? O1P U5P 317 A 1 HETATM 19 O O2P U5P . . . B 2 14.679 50.515 -59.529 1 36.49 ? O2P U5P 317 A 1 HETATM 20 O O3P U5P . . . B 2 15.407 52.766 -59.305 1 31.32 ? O3P U5P 317 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #