data_5DYX # _model_server_result.job_id Ku1pHDo8cyXRaxo5DmpF-Q _model_server_result.datetime_utc '2024-10-19 16:28:58' _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 5dyx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":2001}' # _entry.id 5DYX # _exptl.entry_id 5DYX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 135.127 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ADENINE _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 90 _cell.entry_id 5DYX _cell.length_a 81.129 _cell.length_b 96.236 _cell.length_c 57.783 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DYX _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 H5 N5' _chem_comp.formula_weight 135.127 _chem_comp.id ADE _chem_comp.mon_nstd_flag . _chem_comp.name ADENINE _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 N9 C8 ADE sing 1 n y N9 C4 ADE sing 2 n y N9 HN9 ADE sing 3 n n C8 N7 ADE doub 4 n y C8 H8 ADE sing 5 n n N7 C5 ADE sing 6 n y C5 C6 ADE sing 7 n y C5 C4 ADE doub 8 n y C6 N6 ADE sing 9 n n C6 N1 ADE doub 10 n y N6 HN61 ADE sing 11 n n N6 HN62 ADE sing 12 n n N1 C2 ADE sing 13 n y C2 N3 ADE doub 14 n y C2 H2 ADE sing 15 n n N3 C4 ADE sing 16 n y # _atom_sites.entry_id 5DYX _atom_sites.fract_transf_matrix[1][1] 0.012326 _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] 0.010391 _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] 0.017306 _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 ADE A 1 2001 1 ADE F59 . C 3 HOH A 1 2101 89 HOH HOH . C 3 HOH A 2 2102 128 HOH HOH . C 3 HOH A 3 2103 38 HOH HOH . C 3 HOH A 4 2104 24 HOH HOH . C 3 HOH A 5 2105 40 HOH HOH . C 3 HOH A 6 2106 17 HOH HOH . C 3 HOH A 7 2107 123 HOH HOH . C 3 HOH A 8 2108 19 HOH HOH . C 3 HOH A 9 2109 15 HOH HOH . C 3 HOH A 10 2110 50 HOH HOH . C 3 HOH A 11 2111 35 HOH HOH . C 3 HOH A 12 2112 11 HOH HOH . C 3 HOH A 13 2113 34 HOH HOH . C 3 HOH A 14 2114 41 HOH HOH . C 3 HOH A 15 2115 130 HOH HOH . C 3 HOH A 16 2116 29 HOH HOH . C 3 HOH A 17 2117 26 HOH HOH . C 3 HOH A 18 2118 58 HOH HOH . C 3 HOH A 19 2119 110 HOH HOH . C 3 HOH A 20 2120 64 HOH HOH . C 3 HOH A 21 2121 30 HOH HOH . C 3 HOH A 22 2122 127 HOH HOH . C 3 HOH A 23 2123 22 HOH HOH . C 3 HOH A 24 2124 16 HOH HOH . C 3 HOH A 25 2125 59 HOH HOH . C 3 HOH A 26 2126 78 HOH HOH . C 3 HOH A 27 2127 7 HOH HOH . C 3 HOH A 28 2128 18 HOH HOH . C 3 HOH A 29 2129 55 HOH HOH . C 3 HOH A 30 2130 31 HOH HOH . C 3 HOH A 31 2131 100 HOH HOH . C 3 HOH A 32 2132 93 HOH HOH . C 3 HOH A 33 2133 57 HOH HOH . C 3 HOH A 34 2134 10 HOH HOH . C 3 HOH A 35 2135 21 HOH HOH . C 3 HOH A 36 2136 32 HOH HOH . C 3 HOH A 37 2137 47 HOH HOH . C 3 HOH A 38 2138 43 HOH HOH . C 3 HOH A 39 2139 3 HOH HOH . C 3 HOH A 40 2140 27 HOH HOH . C 3 HOH A 41 2141 8 HOH HOH . C 3 HOH A 42 2142 75 HOH HOH . C 3 HOH A 43 2143 6 HOH HOH . C 3 HOH A 44 2144 5 HOH HOH . C 3 HOH A 45 2145 99 HOH HOH . C 3 HOH A 46 2146 74 HOH HOH . C 3 HOH A 47 2147 94 HOH HOH . C 3 HOH A 48 2148 56 HOH HOH . C 3 HOH A 49 2149 62 HOH HOH . C 3 HOH A 50 2150 52 HOH HOH . C 3 HOH A 51 2151 67 HOH HOH . C 3 HOH A 52 2152 65 HOH HOH . C 3 HOH A 53 2153 45 HOH HOH . C 3 HOH A 54 2154 37 HOH HOH . C 3 HOH A 55 2155 25 HOH HOH . C 3 HOH A 56 2156 83 HOH HOH . C 3 HOH A 57 2157 134 HOH HOH . C 3 HOH A 58 2158 2 HOH HOH . C 3 HOH A 59 2159 13 HOH HOH . C 3 HOH A 60 2160 46 HOH HOH . C 3 HOH A 61 2161 114 HOH HOH . C 3 HOH A 62 2162 39 HOH HOH . C 3 HOH A 63 2163 23 HOH HOH . C 3 HOH A 64 2164 1 HOH HOH . C 3 HOH A 65 2165 88 HOH HOH . C 3 HOH A 66 2166 133 HOH HOH . C 3 HOH A 67 2167 20 HOH HOH . C 3 HOH A 68 2168 80 HOH HOH . C 3 HOH A 69 2169 60 HOH HOH . C 3 HOH A 70 2170 51 HOH HOH . C 3 HOH A 71 2171 9 HOH HOH . C 3 HOH A 72 2172 54 HOH HOH . C 3 HOH A 73 2173 4 HOH HOH . C 3 HOH A 74 2174 48 HOH HOH . C 3 HOH A 75 2175 91 HOH HOH . C 3 HOH A 76 2176 33 HOH HOH . C 3 HOH A 77 2177 79 HOH HOH . C 3 HOH A 78 2178 81 HOH HOH . C 3 HOH A 79 2179 108 HOH HOH . C 3 HOH A 80 2180 49 HOH HOH . C 3 HOH A 81 2181 125 HOH HOH . C 3 HOH A 82 2182 97 HOH HOH . C 3 HOH A 83 2183 126 HOH HOH . C 3 HOH A 84 2184 73 HOH HOH . C 3 HOH A 85 2185 28 HOH HOH . C 3 HOH A 86 2186 14 HOH HOH . C 3 HOH A 87 2187 112 HOH HOH . C 3 HOH A 88 2188 82 HOH HOH . C 3 HOH A 89 2189 36 HOH HOH . C 3 HOH A 90 2190 84 HOH HOH . C 3 HOH A 91 2191 90 HOH HOH . C 3 HOH A 92 2192 87 HOH HOH . C 3 HOH A 93 2193 71 HOH HOH . C 3 HOH A 94 2194 121 HOH HOH . C 3 HOH A 95 2195 95 HOH HOH . C 3 HOH A 96 2196 118 HOH HOH . C 3 HOH A 97 2197 136 HOH HOH . C 3 HOH A 98 2198 104 HOH HOH . C 3 HOH A 99 2199 98 HOH HOH . C 3 HOH A 100 2200 101 HOH HOH . C 3 HOH A 101 2201 12 HOH HOH . C 3 HOH A 102 2202 44 HOH HOH . C 3 HOH A 103 2203 111 HOH HOH . C 3 HOH A 104 2204 85 HOH HOH . C 3 HOH A 105 2205 61 HOH HOH . C 3 HOH A 106 2206 86 HOH HOH . C 3 HOH A 107 2207 53 HOH HOH . C 3 HOH A 108 2208 124 HOH HOH . C 3 HOH A 109 2209 117 HOH HOH . C 3 HOH A 110 2210 69 HOH HOH . C 3 HOH A 111 2211 135 HOH HOH . C 3 HOH A 112 2212 105 HOH HOH . C 3 HOH A 113 2213 76 HOH HOH . C 3 HOH A 114 2214 63 HOH HOH . C 3 HOH A 115 2215 66 HOH HOH . C 3 HOH A 116 2216 42 HOH HOH . C 3 HOH A 117 2217 68 HOH HOH . C 3 HOH A 118 2218 106 HOH HOH . C 3 HOH A 119 2219 72 HOH HOH . C 3 HOH A 120 2220 113 HOH HOH . C 3 HOH A 121 2221 116 HOH HOH . C 3 HOH A 122 2222 96 HOH HOH . C 3 HOH A 123 2223 103 HOH HOH . C 3 HOH A 124 2224 122 HOH HOH . C 3 HOH A 125 2225 92 HOH HOH . C 3 HOH A 126 2226 109 HOH HOH . C 3 HOH A 127 2227 131 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 N N9 ADE . . . B 2 -24.582 -9.616 1.098 0.78 48.53 ? N9 ADE 2001 A 1 HETATM 2 C C8 ADE . . . B 2 -25.234 -10.771 0.827 0.78 43.17 ? C8 ADE 2001 A 1 HETATM 3 N N7 ADE . . . B 2 -26.528 -10.481 0.524 0.78 40.13 ? N7 ADE 2001 A 1 HETATM 4 C C5 ADE . . . B 2 -26.694 -9.11 0.607 0.78 49.27 ? C5 ADE 2001 A 1 HETATM 5 C C6 ADE . . . B 2 -27.801 -8.198 0.405 0.78 55.9 ? C6 ADE 2001 A 1 HETATM 6 N N6 ADE . . . B 2 -29.086 -8.681 0.026 0.78 59.08 ? N6 ADE 2001 A 1 HETATM 7 N N1 ADE . . . B 2 -27.593 -6.88 0.582 0.78 51.08 ? N1 ADE 2001 A 1 HETATM 8 C C2 ADE . . . B 2 -26.4 -6.413 0.929 0.78 46.32 ? C2 ADE 2001 A 1 HETATM 9 N N3 ADE . . . B 2 -25.359 -7.206 1.123 0.78 50.1 ? N3 ADE 2001 A 1 HETATM 10 C C4 ADE . . . B 2 -25.466 -8.57 0.974 0.78 42.11 ? C4 ADE 2001 A 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 322 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 10 #