data_1I5L # _model_server_result.job_id 7jecoahFMivr7ItUWypPgg _model_server_result.datetime_utc '2024-11-14 16:57:59' _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 1i5l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":101}' # _entry.id 1I5L # _exptl.entry_id 1I5L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 244.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description URIDINE _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 115.36 _cell.angle_gamma 90 _cell.entry_id 1I5L _cell.length_a 69.858 _cell.length_b 130.438 _cell.length_c 70.047 _cell.Z_PDB 28 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1I5L _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 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 ? octameric 8 author_defined_assembly 1 ? octameric 8 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,I,Q,R,S,V,W,X,Y,Z,AA 1 1 B,J,K,L,M,N,O,P,T,U,BA,CA,DA,EA,FA,GA,HA 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 ? 3 Q N N ? 3 R N N ? 3 S N N ? 3 T N N # _chem_comp.formula 'C9 H12 N2 O6' _chem_comp.formula_weight 244.201 _chem_comp.id URI _chem_comp.mon_nstd_flag . _chem_comp.name URIDINE _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 URI sing 352 n n N1 C6 URI sing 353 n n N1 C1' URI sing 354 n n C2 N3 URI sing 355 n n C2 O2 URI doub 356 n n N3 C4 URI sing 357 n n N3 H3 URI sing 358 n n C4 C5 URI sing 359 n n C4 O4 URI doub 360 n n C5 C6 URI doub 361 n n C5 H5 URI sing 362 n n C6 H6 URI sing 363 n n C1' C2' URI sing 364 n n C1' O4' URI sing 365 n n C1' H1' URI sing 366 n n C2' C3' URI sing 367 n n C2' O2' URI sing 368 n n C2' H2' URI sing 369 n n C3' C4' URI sing 370 n n C3' O3' URI sing 371 n n C3' H3' URI sing 372 n n C4' O4' URI sing 373 n n C4' C5' URI sing 374 n n C4' H4' URI sing 375 n n O2' HO2' URI sing 376 n n O3' HO3' URI sing 377 n n C5' O5' URI sing 378 n n C5' "H5'1" URI sing 379 n n C5' "H5'2" URI sing 380 n n O5' HO5' URI sing 381 n n # _atom_sites.entry_id 1I5L _atom_sites.fract_transf_matrix[1][1] 0.014315 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006785 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007666 _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] 0.015799 _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 Q 3 URI A 1 201 1 URI URI . R 3 URI B 1 101 1 URI URI . S 3 URI C 1 301 1 URI URI . T 3 URI H 1 401 1 URI URI . U 4 HOH Y 1 45 45 HOH WAT . V 4 HOH B 1 102 1 HOH WAT . W 4 HOH C 1 302 15 HOH WAT . W 4 HOH C 2 303 32 HOH WAT . W 4 HOH C 3 304 35 HOH WAT . X 4 HOH D 1 78 11 HOH WAT . X 4 HOH D 2 79 21 HOH WAT . X 4 HOH D 3 80 26 HOH WAT . X 4 HOH D 4 81 48 HOH WAT . Y 4 HOH E 1 78 8 HOH WAT . Y 4 HOH E 2 79 19 HOH WAT . Y 4 HOH E 3 80 23 HOH WAT . Y 4 HOH E 4 81 52 HOH WAT . Z 4 HOH F 1 78 16 HOH WAT . Z 4 HOH F 2 79 17 HOH WAT . AA 4 HOH G 1 78 3 HOH WAT . AA 4 HOH G 2 79 6 HOH WAT . AA 4 HOH G 3 80 7 HOH WAT . AA 4 HOH G 4 81 9 HOH WAT . AA 4 HOH G 5 82 25 HOH WAT . AA 4 HOH G 6 83 40 HOH WAT . AA 4 HOH G 7 84 50 HOH WAT . AA 4 HOH G 8 85 53 HOH WAT . BA 4 HOH H 1 402 5 HOH WAT . BA 4 HOH H 2 403 46 HOH WAT . BA 4 HOH H 3 404 47 HOH WAT . BA 4 HOH H 4 405 55 HOH WAT . CA 4 HOH I 1 78 4 HOH WAT . CA 4 HOH I 2 79 10 HOH WAT . CA 4 HOH I 3 80 37 HOH WAT . CA 4 HOH I 4 81 49 HOH WAT . CA 4 HOH I 5 82 56 HOH WAT . DA 4 HOH J 1 78 28 HOH WAT . DA 4 HOH J 2 79 31 HOH WAT . DA 4 HOH J 3 80 33 HOH WAT . DA 4 HOH J 4 81 54 HOH WAT . EA 4 HOH K 1 78 14 HOH WAT . EA 4 HOH K 2 79 29 HOH WAT . EA 4 HOH K 3 80 42 HOH WAT . EA 4 HOH K 4 81 44 HOH WAT . FA 4 HOH L 1 78 18 HOH WAT . FA 4 HOH L 2 79 30 HOH WAT . GA 4 HOH M 1 78 2 HOH WAT . GA 4 HOH M 2 79 13 HOH WAT . GA 4 HOH M 3 80 22 HOH WAT . GA 4 HOH M 4 81 34 HOH WAT . GA 4 HOH M 5 82 38 HOH WAT . GA 4 HOH M 6 83 39 HOH WAT . GA 4 HOH M 7 84 43 HOH WAT . HA 4 HOH N 1 78 12 HOH WAT . HA 4 HOH N 2 79 20 HOH WAT . HA 4 HOH N 3 80 24 HOH WAT . HA 4 HOH N 4 81 27 HOH WAT . HA 4 HOH N 5 82 36 HOH WAT . HA 4 HOH N 6 83 41 HOH WAT . HA 4 HOH N 7 84 51 HOH WAT . HA 4 HOH N 8 85 57 HOH WAT . # 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 URI . . . R 3 20.722 6.469 16.549 0.75 72.23 ? N1 URI 101 B 1 HETATM 2 C C2 URI . . . R 3 21.743 5.809 15.9 0.75 69.54 ? C2 URI 101 B 1 HETATM 3 N N3 URI . . . R 3 21.978 6.217 14.613 0.75 70.41 ? N3 URI 101 B 1 HETATM 4 C C4 URI . . . R 3 21.3 7.196 13.912 0.75 70.83 ? C4 URI 101 B 1 HETATM 5 C C5 URI . . . R 3 20.212 7.798 14.632 0.75 70.03 ? C5 URI 101 B 1 HETATM 6 C C6 URI . . . R 3 19.963 7.418 15.894 0.75 72.11 ? C6 URI 101 B 1 HETATM 7 O O2 URI . . . R 3 22.389 4.926 16.423 0.75 69.38 ? O2 URI 101 B 1 HETATM 8 O O4 URI . . . R 3 21.731 7.554 12.811 0.75 67.25 ? O4 URI 101 B 1 HETATM 9 C C1' URI . . . R 3 20.521 6.158 17.973 0.75 77.8 ? C1' URI 101 B 1 HETATM 10 C C2' URI . . . R 3 20.323 7.41 18.844 0.75 78.94 ? C2' URI 101 B 1 HETATM 11 C C3' URI . . . R 3 18.823 7.368 19.115 0.75 79.13 ? C3' URI 101 B 1 HETATM 12 C C4' URI . . . R 3 18.559 5.875 19.204 0.75 79.39 ? C4' URI 101 B 1 HETATM 13 O O2' URI . . . R 3 21.103 7.316 20.019 0.75 80.87 ? O2' URI 101 B 1 HETATM 14 O O3' URI . . . R 3 18.407 8.1 20.275 0.75 78.61 ? O3' URI 101 B 1 HETATM 15 O O4' URI . . . R 3 19.368 5.346 18.125 0.75 78.93 ? O4' URI 101 B 1 HETATM 16 C C5' URI . . . R 3 17.124 5.44 19.029 0.75 80.79 ? C5' URI 101 B 1 HETATM 17 O O5' URI . . . R 3 16.972 4.578 17.898 0.75 82.66 ? O5' URI 101 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 17 #