data_1XTV # _model_server_result.job_id DJCiCxL-Efojo6o1kTYlfg _model_server_result.datetime_utc '2024-10-14 04:28:21' _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 1xtv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1250}' # _entry.id 1XTV # _exptl.entry_id 1XTV _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 85.82 _cell.angle_beta 85.28 _cell.angle_gamma 62.46 _cell.entry_id 1XTV _cell.length_a 68.1 _cell.length_b 73.57 _cell.length_c 115.1 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XTV _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,I,J 1 1 E,F,G,H,K,L 2 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 I N N ? 2 J N N ? 2 K N N ? 2 L N 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 315 n n N1 C6 U5P sing 316 n n N1 C1' U5P sing 317 n n C2 N3 U5P sing 318 n n C2 O2 U5P doub 319 n n N3 C4 U5P sing 320 n n N3 HN3 U5P sing 321 n n C4 C5 U5P sing 322 n n C4 O4 U5P doub 323 n n C5 C6 U5P doub 324 n n C5 H5 U5P sing 325 n n C6 H6 U5P sing 326 n n C1' C2' U5P sing 327 n n C1' O4' U5P sing 328 n n C1' H1' U5P sing 329 n n C2' O2' U5P sing 330 n n C2' C3' U5P sing 331 n n C2' H2' U5P sing 332 n n O2' HO2' U5P sing 333 n n C3' C4' U5P sing 334 n n C3' O3' U5P sing 335 n n C3' H3' U5P sing 336 n n C4' O4' U5P sing 337 n n C4' C5' U5P sing 338 n n C4' H4' U5P sing 339 n n O3' HO3' U5P sing 340 n n C5' O5' U5P sing 341 n n C5' "H5'1" U5P sing 342 n n C5' "H5'2" U5P sing 343 n n O5' P U5P sing 344 n n P O1P U5P doub 345 n n P O2P U5P sing 346 n n P O3P U5P sing 347 n n O2P HOP2 U5P sing 348 n n O3P HOP3 U5P sing 349 n n # _atom_sites.entry_id 1XTV _atom_sites.fract_transf_matrix[1][1] 0.014684 _atom_sites.fract_transf_matrix[1][2] -0.007657 _atom_sites.fract_transf_matrix[1][3] -0.000911 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01533 _atom_sites.fract_transf_matrix[2][3] -0.000605 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.008724 _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 I 2 U5P A 1 1250 250 U5P UMP . J 2 U5P C 1 2250 250 U5P UMP . K 2 U5P E 1 3250 250 U5P UMP . L 2 U5P G 1 4250 250 U5P UMP . # 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 . . . I 2 74.534 30.626 113.176 1 19.54 ? N1 U5P 1250 A 1 HETATM 2 C C2 U5P . . . I 2 75.608 30.17 112.337 1 19.84 ? C2 U5P 1250 A 1 HETATM 3 N N3 U5P . . . I 2 76.924 30.393 112.819 1 21.87 ? N3 U5P 1250 A 1 HETATM 4 C C4 U5P . . . I 2 77.181 31.037 114.049 1 23.57 ? C4 U5P 1250 A 1 HETATM 5 C C5 U5P . . . I 2 76.084 31.51 114.859 1 13.09 ? C5 U5P 1250 A 1 HETATM 6 C C6 U5P . . . I 2 74.699 31.277 114.376 1 16.99 ? C6 U5P 1250 A 1 HETATM 7 O O2 U5P . . . I 2 75.404 29.562 111.166 1 28.04 ? O2 U5P 1250 A 1 HETATM 8 O O4 U5P . . . I 2 78.345 31.188 114.411 1 32.54 ? O4 U5P 1250 A 1 HETATM 9 C C1' U5P . . . I 2 73.081 30.382 112.679 1 25.39 ? C1' U5P 1250 A 1 HETATM 10 C C2' U5P . . . I 2 72.664 28.922 112.351 1 32.52 ? C2' U5P 1250 A 1 HETATM 11 O O2' U5P . . . I 2 72.457 28.827 110.97 1 42.43 ? O2' U5P 1250 A 1 HETATM 12 C C3' U5P . . . I 2 71.4 28.638 113.274 1 31.29 ? C3' U5P 1250 A 1 HETATM 13 C C4' U5P . . . I 2 71.184 29.902 114.032 1 32.53 ? C4' U5P 1250 A 1 HETATM 14 O O3' U5P . . . I 2 70.274 28.338 112.362 1 30.51 ? O3' U5P 1250 A 1 HETATM 15 O O4' U5P . . . I 2 72.181 30.908 113.66 1 26.7 ? O4' U5P 1250 A 1 HETATM 16 C C5' U5P . . . I 2 71.297 29.89 115.513 1 34.51 ? C5' U5P 1250 A 1 HETATM 17 O O5' U5P . . . I 2 71.699 31.054 116.18 1 37.7 ? O5' U5P 1250 A 1 HETATM 18 P P U5P . . . I 2 71.011 31.456 117.542 1 26.92 ? P U5P 1250 A 1 HETATM 19 O O1P U5P . . . I 2 69.529 31.56 117.212 1 18.98 ? O1P U5P 1250 A 1 HETATM 20 O O2P U5P . . . I 2 71.325 30.346 118.534 1 30.71 ? O2P U5P 1250 A 1 HETATM 21 O O3P U5P . . . I 2 71.61 32.757 117.984 1 27.6 ? O3P U5P 1250 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 21 #