data_5E3D # _model_server_result.job_id 3WlYJEb4PaFAYbMgBts6aA _model_server_result.datetime_utc '2024-11-22 12:15:57' _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 5e3d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":801}' # _entry.id 5E3D # _exptl.entry_id 5E3D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 200.241 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2,8-dithioxo-1,2,3,7,8,9-hexahydro-6H-purin-6-one _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 5E3D _cell.length_a 60.73 _cell.length_b 60.73 _cell.length_c 62.43 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5E3D _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _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 'C5 H4 N4 O S2' _chem_comp.formula_weight 200.241 _chem_comp.id 5JL _chem_comp.mon_nstd_flag . _chem_comp.name 2,8-dithioxo-1,2,3,7,8,9-hexahydro-6H-purin-6-one _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 O6 C6 5JL doub 1 n n N7 C5 5JL sing 2 n n N7 C8 5JL sing 3 n n C6 C5 5JL sing 4 n n C6 N1 5JL sing 5 n n S8 C8 5JL doub 6 n n C5 C4 5JL doub 7 n n C8 N9 5JL sing 8 n n N1 C2 5JL sing 9 n n C4 N9 5JL sing 10 n n C4 N3 5JL sing 11 n n C2 N3 5JL sing 12 n n C2 S2 5JL doub 13 n n N1 H1 5JL sing 14 n n N3 H2 5JL sing 15 n n N7 H3 5JL sing 16 n n N9 H4 5JL sing 17 n n # _atom_sites.entry_id 5E3D _atom_sites.fract_transf_matrix[1][1] 0.016466 _atom_sites.fract_transf_matrix[1][2] 0.009507 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019014 _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] 0.016018 _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 5JL A 1 801 1 5JL DRG . C 3 NO3 A 1 802 1 NO3 NO3 . D 4 HOH A 1 901 19 HOH HOH . D 4 HOH A 2 902 54 HOH HOH . D 4 HOH A 3 903 58 HOH HOH . D 4 HOH A 4 904 1 HOH HOH . D 4 HOH A 5 905 72 HOH HOH . D 4 HOH A 6 906 33 HOH HOH . D 4 HOH A 7 907 4 HOH HOH . D 4 HOH A 8 908 34 HOH HOH . D 4 HOH A 9 909 81 HOH HOH . D 4 HOH A 10 910 16 HOH HOH . D 4 HOH A 11 911 31 HOH HOH . D 4 HOH A 12 912 69 HOH HOH . D 4 HOH A 13 913 65 HOH HOH . D 4 HOH A 14 914 27 HOH HOH . D 4 HOH A 15 915 43 HOH HOH . D 4 HOH A 16 916 47 HOH HOH . D 4 HOH A 17 917 91 HOH HOH . D 4 HOH A 18 918 21 HOH HOH . D 4 HOH A 19 919 7 HOH HOH . D 4 HOH A 20 920 37 HOH HOH . D 4 HOH A 21 921 12 HOH HOH . D 4 HOH A 22 922 90 HOH HOH . D 4 HOH A 23 923 9 HOH HOH . D 4 HOH A 24 924 6 HOH HOH . D 4 HOH A 25 925 17 HOH HOH . D 4 HOH A 26 926 36 HOH HOH . D 4 HOH A 27 927 11 HOH HOH . D 4 HOH A 28 928 74 HOH HOH . D 4 HOH A 29 929 32 HOH HOH . D 4 HOH A 30 930 51 HOH HOH . D 4 HOH A 31 931 44 HOH HOH . D 4 HOH A 32 932 13 HOH HOH . D 4 HOH A 33 933 67 HOH HOH . D 4 HOH A 34 934 24 HOH HOH . D 4 HOH A 35 935 10 HOH HOH . D 4 HOH A 36 936 25 HOH HOH . D 4 HOH A 37 937 39 HOH HOH . D 4 HOH A 38 938 75 HOH HOH . D 4 HOH A 39 939 3 HOH HOH . D 4 HOH A 40 940 28 HOH HOH . D 4 HOH A 41 941 63 HOH HOH . D 4 HOH A 42 942 8 HOH HOH . D 4 HOH A 43 943 38 HOH HOH . D 4 HOH A 44 944 22 HOH HOH . D 4 HOH A 45 945 18 HOH HOH . D 4 HOH A 46 946 26 HOH HOH . D 4 HOH A 47 947 23 HOH HOH . D 4 HOH A 48 948 2 HOH HOH . D 4 HOH A 49 949 48 HOH HOH . D 4 HOH A 50 950 71 HOH HOH . D 4 HOH A 51 951 14 HOH HOH . D 4 HOH A 52 952 56 HOH HOH . D 4 HOH A 53 953 15 HOH HOH . D 4 HOH A 54 954 40 HOH HOH . D 4 HOH A 55 955 57 HOH HOH . D 4 HOH A 56 956 41 HOH HOH . D 4 HOH A 57 957 5 HOH HOH . D 4 HOH A 58 958 64 HOH HOH . D 4 HOH A 59 959 29 HOH HOH . D 4 HOH A 60 960 78 HOH HOH . D 4 HOH A 61 961 59 HOH HOH . D 4 HOH A 62 962 70 HOH HOH . D 4 HOH A 63 963 68 HOH HOH . D 4 HOH A 64 964 46 HOH HOH . D 4 HOH A 65 965 49 HOH HOH . D 4 HOH A 66 966 73 HOH HOH . D 4 HOH A 67 967 52 HOH HOH . D 4 HOH A 68 968 35 HOH HOH . D 4 HOH A 69 969 61 HOH HOH . D 4 HOH A 70 970 53 HOH HOH . D 4 HOH A 71 971 76 HOH HOH . D 4 HOH A 72 972 85 HOH HOH . D 4 HOH A 73 973 20 HOH HOH . D 4 HOH A 74 974 79 HOH HOH . D 4 HOH A 75 975 42 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 C C4 5JL . . . B 2 7.223 -10.322 4.621 1 59.98 ? C4 5JL 801 A 1 HETATM 2 C C5 5JL . . . B 2 7.173 -10.732 3.341 1 57.52 ? C5 5JL 801 A 1 HETATM 3 C C6 5JL . . . B 2 7.86 -11.821 2.939 1 53.13 ? C6 5JL 801 A 1 HETATM 4 C C8 5JL . . . B 2 5.953 -8.967 3.574 1 58.09 ? C8 5JL 801 A 1 HETATM 5 N N1 5JL . . . B 2 8.639 -12.549 3.842 1 61.24 ? N1 5JL 801 A 1 HETATM 6 N N3 5JL . . . B 2 7.984 -11.013 5.568 1 63.93 ? N3 5JL 801 A 1 HETATM 7 O O6 5JL . . . B 2 7.832 -12.228 1.776 1 45.89 ? O6 5JL 801 A 1 HETATM 8 N N7 5JL . . . B 2 6.371 -9.876 2.688 1 55.89 ? N7 5JL 801 A 1 HETATM 9 S S8 5JL . . . B 2 4.867 -7.592 3.254 1 58.91 ? S8 5JL 801 A 1 HETATM 10 N N9 5JL . . . B 2 6.471 -9.231 4.765 1 58.42 ? N9 5JL 801 A 1 HETATM 11 C C2 5JL . . . B 2 8.703 -12.141 5.176 1 66.89 ? C2 5JL 801 A 1 HETATM 12 S S2 5JL . . . B 2 9.656 -13.013 6.332 1 72.24 ? S2 5JL 801 A 1 # _model_server_stats.io_time_ms 71 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 12 #