data_1RTS # _model_server_result.job_id ffuXgfMcHAHioHbFrRARMg _model_server_result.datetime_utc '2024-11-24 20:02:23' _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 1rts # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":308}' # _entry.id 1RTS # _exptl.entry_id 1RTS _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 97.8 _cell.angle_gamma 90 _cell.entry_id 1RTS _cell.length_a 159.6 _cell.length_b 88.5 _cell.length_c 68.8 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1RTS _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _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,D,E,F _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 C N N ? 2 E N 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 412 n n N1 C6 UMP sing 413 n n N1 C1' UMP sing 414 n n C2 N3 UMP sing 415 n n C2 O2 UMP doub 416 n n N3 C4 UMP sing 417 n n N3 HN3 UMP sing 418 n n C4 C5 UMP sing 419 n n C4 O4 UMP doub 420 n n C5 C6 UMP doub 421 n n C5 H5 UMP sing 422 n n C6 H6 UMP sing 423 n n C1' C2' UMP sing 424 n n C1' O4' UMP sing 425 n n C1' H1' UMP sing 426 n n C2' C3' UMP sing 427 n n C2' H2' UMP sing 428 n n C2' "H2''" UMP sing 429 n n C3' C4' UMP sing 430 n n C3' O3' UMP sing 431 n n C3' H3' UMP sing 432 n n C4' O4' UMP sing 433 n n C4' C5' UMP sing 434 n n C4' H4' UMP sing 435 n n O3' HO3' UMP sing 436 n n C5' O5' UMP sing 437 n n C5' H5' UMP sing 438 n n C5' "H5''" UMP sing 439 n n O5' P UMP sing 440 n n P OP1 UMP doub 441 n n P OP2 UMP sing 442 n n P OP3 UMP sing 443 n n OP2 HOP2 UMP sing 444 n n OP3 HOP3 UMP sing 445 n n # _atom_sites.entry_id 1RTS _atom_sites.fract_transf_matrix[1][1] 0.006266 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000858 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011299 _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] 0.014671 _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 C 2 UMP A 1 308 308 UMP UMP . D 3 D16 A 1 309 309 D16 D16 . E 2 UMP B 1 408 408 UMP UMP . F 3 D16 B 1 409 409 D16 D16 . # 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 . . . C 2 96.626 -11.334 34.605 1 19.09 ? N1 UMP 308 A 1 HETATM 2 C C2 UMP . . . C 2 97.393 -12.288 35.257 1 19.09 ? C2 UMP 308 A 1 HETATM 3 N N3 UMP . . . C 2 96.924 -13.573 35.155 1 19.09 ? N3 UMP 308 A 1 HETATM 4 C C4 UMP . . . C 2 95.803 -13.997 34.474 1 19.09 ? C4 UMP 308 A 1 HETATM 5 C C5 UMP . . . C 2 95.088 -12.961 33.796 1 19.09 ? C5 UMP 308 A 1 HETATM 6 C C6 UMP . . . C 2 95.511 -11.697 33.883 1 19.09 ? C6 UMP 308 A 1 HETATM 7 O O2 UMP . . . C 2 98.413 -12.02 35.871 1 19.09 ? O2 UMP 308 A 1 HETATM 8 O O4 UMP . . . C 2 95.469 -15.179 34.542 1 19.09 ? O4 UMP 308 A 1 HETATM 9 C C1' UMP . . . C 2 97.029 -9.923 34.732 1 19.09 ? C1' UMP 308 A 1 HETATM 10 C C2' UMP . . . C 2 98.446 -9.616 34.282 1 19.09 ? C2' UMP 308 A 1 HETATM 11 C C3' UMP . . . C 2 98.345 -8.167 33.845 1 19.09 ? C3' UMP 308 A 1 HETATM 12 C C4' UMP . . . C 2 96.917 -8.055 33.312 1 19.09 ? C4' UMP 308 A 1 HETATM 13 O O3' UMP . . . C 2 98.48 -7.322 34.992 1 19.09 ? O3' UMP 308 A 1 HETATM 14 O O4' UMP . . . C 2 96.175 -9.145 33.908 1 19.09 ? O4' UMP 308 A 1 HETATM 15 C C5' UMP . . . C 2 96.808 -8.124 31.807 1 19.09 ? C5' UMP 308 A 1 HETATM 16 O O5' UMP . . . C 2 97.365 -6.934 31.207 1 19.09 ? O5' UMP 308 A 1 HETATM 17 P P UMP . . . C 2 97.768 -6.904 29.628 1 19.09 ? P UMP 308 A 1 HETATM 18 O OP1 UMP . . . C 2 96.524 -7.33 28.864 1 19.09 ? OP1 UMP 308 A 1 HETATM 19 O OP2 UMP . . . C 2 98.179 -5.475 29.312 1 19.09 ? OP2 UMP 308 A 1 HETATM 20 O OP3 UMP . . . C 2 98.915 -7.895 29.516 1 19.09 ? OP3 UMP 308 A 1 # _model_server_stats.io_time_ms 52 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 213 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 20 #