data_1XXJ # _model_server_result.job_id bJPLgmhIwY-KvULUVDR07A _model_server_result.datetime_utc '2024-10-16 10:25:59' _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 1xxj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":999}' # _entry.id 1XXJ # _exptl.entry_id 1XXJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 172.099 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-AMINO-6-NITROPYRIMIDINE-2,4(1H,3H)-DIONE _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 90 _cell.angle_gamma 90 _cell.entry_id 1XXJ _cell.length_a 126.245 _cell.length_b 142.265 _cell.length_c 81.322 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XXJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,G,H,I,J,K,L,M _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 E N N ? 2 F N N ? 2 G N N ? 2 I N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 A C SAC 1 A SAC 1 1_555 A N ALA 2 A ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 B C SAC 1 B SAC 1 1_555 B N ALA 2 B ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale3 C C SAC 1 C SAC 1 1_555 C N ALA 2 C ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale4 D C SAC 1 D SAC 1 1_555 D N ALA 2 D ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? # _chem_comp.formula 'C4 H4 N4 O4' _chem_comp.formula_weight 172.099 _chem_comp.id UNC _chem_comp.mon_nstd_flag . _chem_comp.name 5-AMINO-6-NITROPYRIMIDINE-2,4(1H,3H)-DIONE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '5-AMINO 6-NITRO URACIL' # 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 OD2 N4 UNC doub 388 n n N4 OD1 UNC sing 389 n n N4 C4 UNC sing 390 n n C4 N3 UNC sing 391 n y C4 C5 UNC doub 392 n y N3 C2 UNC sing 393 n y N3 HN3 UNC sing 394 n n C2 O2 UNC doub 395 n n C2 N1 UNC sing 396 n y C5 N5 UNC sing 397 n n C5 C6 UNC sing 398 n y N5 HN51 UNC sing 399 n n N5 HN52 UNC sing 400 n n C6 O6 UNC doub 401 n n C6 N1 UNC sing 402 n y N1 HN1 UNC sing 403 n n # _atom_sites.entry_id 1XXJ _atom_sites.fract_transf_matrix[1][1] 0.007921 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007029 _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] 0.012297 _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 E 2 UNC A 1 999 999 UNC UNC . F 2 UNC B 1 1999 999 UNC UNC . G 2 UNC C 1 2999 999 UNC UNC . H 3 BNZ C 1 931 931 BNZ BNZ . I 2 UNC D 1 3999 999 UNC UNC . J 4 HOH A 1 1002 1002 HOH WAT . J 4 HOH A 2 1003 1003 HOH WAT . J 4 HOH A 3 1004 1004 HOH WAT . J 4 HOH A 4 1005 1005 HOH WAT . J 4 HOH A 5 1006 1006 HOH WAT . J 4 HOH A 6 1008 1008 HOH WAT . J 4 HOH A 7 1024 1024 HOH WAT . J 4 HOH A 8 1207 1207 HOH WAT . K 4 HOH B 1 1001 1001 HOH WAT . K 4 HOH B 2 1009 1009 HOH WAT . K 4 HOH B 3 1010 1010 HOH WAT . K 4 HOH B 4 1011 1011 HOH WAT . K 4 HOH B 5 1012 1012 HOH WAT . K 4 HOH B 6 1213 1213 HOH WAT . L 4 HOH C 1 1014 1014 HOH WAT . L 4 HOH C 2 1016 1016 HOH WAT . L 4 HOH C 3 1017 1017 HOH WAT . L 4 HOH C 4 1018 1018 HOH WAT . L 4 HOH C 5 1026 1026 HOH WAT . L 4 HOH C 6 1219 1219 HOH WAT . M 4 HOH D 1 1015 1015 HOH WAT . M 4 HOH D 2 1020 1020 HOH WAT . M 4 HOH D 3 1021 1021 HOH WAT . M 4 HOH D 4 1022 1022 HOH WAT . M 4 HOH D 5 1023 1023 HOH WAT . M 4 HOH D 6 1025 1025 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 O OD2 UNC . . . E 2 25.075 23.176 6.081 1 42.36 ? OD2 UNC 999 A 1 HETATM 2 N N4 UNC . . . E 2 24.774 22.512 7.094 1 41.39 ? N4 UNC 999 A 1 HETATM 3 O OD1 UNC . . . E 2 23.626 22.435 7.59 1 41.82 ? OD1 UNC 999 A 1 HETATM 4 C C4 UNC . . . E 2 25.92 21.892 7.737 1 39.18 ? C4 UNC 999 A 1 HETATM 5 N N3 UNC . . . E 2 27.197 21.964 7.199 1 38.05 ? N3 UNC 999 A 1 HETATM 6 C C2 UNC . . . E 2 28.255 21.289 7.985 1 37.95 ? C2 UNC 999 A 1 HETATM 7 O O2 UNC . . . E 2 29.463 21.268 7.635 1 38.97 ? O2 UNC 999 A 1 HETATM 8 C C5 UNC . . . E 2 25.517 21.257 8.931 1 38.57 ? C5 UNC 999 A 1 HETATM 9 N N5 UNC . . . E 2 24.302 21.22 9.379 1 39.27 ? N5 UNC 999 A 1 HETATM 10 C C6 UNC . . . E 2 26.556 20.564 9.756 1 38.4 ? C6 UNC 999 A 1 HETATM 11 O O6 UNC . . . E 2 26.312 19.969 10.82 1 39 ? O6 UNC 999 A 1 HETATM 12 N N1 UNC . . . E 2 27.867 20.646 9.195 1 37.3 ? N1 UNC 999 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 12 #