data_4YDP # _model_server_result.job_id GNf7IVEMWS5ua8WX52S8tg _model_server_result.datetime_utc '2025-01-03 07:12:19' _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 4ydp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":103}' # _entry.id 4YDP # _exptl.entry_id 4YDP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 131.173 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description LEUCINE _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 120 _cell.angle_gamma 90 _cell.entry_id 4YDP _cell.length_a 28.9 _cell.length_b 95.5 _cell.length_c 28.9 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YDP _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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 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,I 1 1 B,F,G,H,J 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 E N N ? 3 H N N # _chem_comp.formula 'C6 H13 N O2' _chem_comp.formula_weight 131.173 _chem_comp.id LEU _chem_comp.mon_nstd_flag y _chem_comp.name LEUCINE _chem_comp.type 'l-peptide linking' _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 N CA LEU sing 160 n n N H LEU sing 161 n n N H2 LEU sing 162 n n CA C LEU sing 163 n n CA CB LEU sing 164 n n CA HA LEU sing 165 n n C O LEU doub 166 n n C OXT LEU sing 167 n n CB CG LEU sing 168 n n CB HB2 LEU sing 169 n n CB HB3 LEU sing 170 n n CG CD1 LEU sing 171 n n CG CD2 LEU sing 172 n n CG HG LEU sing 173 n n CD1 HD11 LEU sing 174 n n CD1 HD12 LEU sing 175 n n CD1 HD13 LEU sing 176 n n CD2 HD21 LEU sing 177 n n CD2 HD22 LEU sing 178 n n CD2 HD23 LEU sing 179 n n OXT HXT LEU sing 180 n n # _atom_sites.entry_id 4YDP _atom_sites.fract_transf_matrix[1][1] 0.034602 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.019978 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010471 _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] 0.039955 _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 GLU A 1 101 -2 GLU GLU . D 2 GLU A 1 102 -1 GLU GLU . E 3 LEU A 1 103 0 LEU LEU . F 2 GLU B 1 101 -2 GLU GLU . G 2 GLU B 1 102 -1 GLU GLU . H 3 LEU B 1 103 0 LEU LEU . I 4 HOH A 1 201 213 HOH HOH . I 4 HOH A 2 202 100 HOH HOH . I 4 HOH A 3 203 215 HOH HOH . I 4 HOH A 4 204 302 HOH HOH . I 4 HOH A 5 205 8 HOH HOH . I 4 HOH A 6 206 71 HOH HOH . I 4 HOH A 7 207 13 HOH HOH . I 4 HOH A 8 208 19 HOH HOH . I 4 HOH A 9 209 216 HOH HOH . I 4 HOH A 10 210 132 HOH HOH . I 4 HOH A 11 211 172 HOH HOH . I 4 HOH A 12 212 77 HOH HOH . I 4 HOH A 13 213 138 HOH HOH . I 4 HOH A 14 214 47 HOH HOH . I 4 HOH A 15 215 134 HOH HOH . I 4 HOH A 16 216 69 HOH HOH . I 4 HOH A 17 217 150 HOH HOH . I 4 HOH A 18 218 209 HOH HOH . I 4 HOH A 19 219 7 HOH HOH . I 4 HOH A 20 220 46 HOH HOH . I 4 HOH A 21 221 327 HOH HOH . I 4 HOH A 22 222 90 HOH HOH . I 4 HOH A 23 223 282 HOH HOH . I 4 HOH A 24 224 290 HOH HOH . I 4 HOH A 25 225 328 HOH HOH . I 4 HOH A 26 226 315 HOH HOH . I 4 HOH A 27 227 50 HOH HOH . I 4 HOH A 28 228 283 HOH HOH . I 4 HOH A 29 229 25 HOH HOH . I 4 HOH A 30 230 48 HOH HOH . I 4 HOH A 31 231 133 HOH HOH . I 4 HOH A 32 232 204 HOH HOH . I 4 HOH A 33 233 21 HOH HOH . I 4 HOH A 34 234 318 HOH HOH . I 4 HOH A 35 235 207 HOH HOH . I 4 HOH A 36 236 295 HOH HOH . I 4 HOH A 37 237 309 HOH HOH . I 4 HOH A 38 238 319 HOH HOH . I 4 HOH A 39 239 298 HOH HOH . I 4 HOH A 40 240 292 HOH HOH . I 4 HOH A 41 241 184 HOH HOH . I 4 HOH A 42 242 109 HOH HOH . I 4 HOH A 43 243 273 HOH HOH . I 4 HOH A 44 244 40 HOH HOH . I 4 HOH A 45 245 193 HOH HOH . I 4 HOH A 46 246 187 HOH HOH . I 4 HOH A 47 247 1 HOH HOH . I 4 HOH A 48 248 4 HOH HOH . I 4 HOH A 49 249 15 HOH HOH . I 4 HOH A 50 250 20 HOH HOH . I 4 HOH A 51 251 23 HOH HOH . I 4 HOH A 52 252 30 HOH HOH . I 4 HOH A 53 253 39 HOH HOH . I 4 HOH A 54 254 44 HOH HOH . I 4 HOH A 55 255 52 HOH HOH . I 4 HOH A 56 256 56 HOH HOH . I 4 HOH A 57 257 62 HOH HOH . I 4 HOH A 58 258 64 HOH HOH . I 4 HOH A 59 259 66 HOH HOH . I 4 HOH A 60 260 87 HOH HOH . I 4 HOH A 61 261 88 HOH HOH . I 4 HOH A 62 262 106 HOH HOH . I 4 HOH A 63 263 107 HOH HOH . I 4 HOH A 64 264 115 HOH HOH . I 4 HOH A 65 265 123 HOH HOH . I 4 HOH A 66 266 131 HOH HOH . I 4 HOH A 67 267 194 HOH HOH . I 4 HOH A 68 268 203 HOH HOH . I 4 HOH A 69 269 250 HOH HOH . I 4 HOH A 70 270 264 HOH HOH . I 4 HOH A 71 271 288 HOH HOH . I 4 HOH A 72 272 304 HOH HOH . I 4 HOH A 73 273 321 HOH HOH . I 4 HOH A 74 274 322 HOH HOH . J 4 HOH B 1 201 51 HOH HOH . J 4 HOH B 2 202 293 HOH HOH . J 4 HOH B 3 203 10 HOH HOH . J 4 HOH B 4 204 324 HOH HOH . J 4 HOH B 5 205 92 HOH HOH . J 4 HOH B 6 206 236 HOH HOH . J 4 HOH B 7 207 16 HOH HOH . J 4 HOH B 8 208 265 HOH HOH . J 4 HOH B 9 209 9 HOH HOH . J 4 HOH B 10 210 143 HOH HOH . J 4 HOH B 11 211 289 HOH HOH . J 4 HOH B 12 212 270 HOH HOH . J 4 HOH B 13 213 197 HOH HOH . J 4 HOH B 14 214 225 HOH HOH . J 4 HOH B 15 215 54 HOH HOH . J 4 HOH B 16 216 28 HOH HOH . J 4 HOH B 17 217 125 HOH HOH . J 4 HOH B 18 218 128 HOH HOH . J 4 HOH B 19 219 160 HOH HOH . J 4 HOH B 20 220 114 HOH HOH . J 4 HOH B 21 221 108 HOH HOH . J 4 HOH B 22 222 311 HOH HOH . J 4 HOH B 23 223 331 HOH HOH . J 4 HOH B 24 224 219 HOH HOH . J 4 HOH B 25 225 18 HOH HOH . J 4 HOH B 26 226 49 HOH HOH . J 4 HOH B 27 227 142 HOH HOH . J 4 HOH B 28 228 317 HOH HOH . J 4 HOH B 29 229 296 HOH HOH . J 4 HOH B 30 230 301 HOH HOH . J 4 HOH B 31 231 279 HOH HOH . J 4 HOH B 32 232 36 HOH HOH . J 4 HOH B 33 233 200 HOH HOH . J 4 HOH B 34 234 267 HOH HOH . J 4 HOH B 35 235 294 HOH HOH . J 4 HOH B 36 236 272 HOH HOH . J 4 HOH B 37 237 326 HOH HOH . J 4 HOH B 38 238 240 HOH HOH . J 4 HOH B 39 239 332 HOH HOH . J 4 HOH B 40 240 314 HOH HOH . J 4 HOH B 41 241 26 HOH HOH . J 4 HOH B 42 242 2 HOH HOH . J 4 HOH B 43 243 3 HOH HOH . J 4 HOH B 44 244 5 HOH HOH . J 4 HOH B 45 245 6 HOH HOH . J 4 HOH B 46 246 11 HOH HOH . J 4 HOH B 47 247 22 HOH HOH . J 4 HOH B 48 248 31 HOH HOH . J 4 HOH B 49 249 32 HOH HOH . J 4 HOH B 50 250 63 HOH HOH . J 4 HOH B 51 251 68 HOH HOH . J 4 HOH B 52 252 72 HOH HOH . J 4 HOH B 53 253 73 HOH HOH . J 4 HOH B 54 254 79 HOH HOH . J 4 HOH B 55 255 124 HOH HOH . J 4 HOH B 56 256 126 HOH HOH . J 4 HOH B 57 257 129 HOH HOH . J 4 HOH B 58 258 130 HOH HOH . J 4 HOH B 59 259 141 HOH HOH . J 4 HOH B 60 260 196 HOH HOH . J 4 HOH B 61 261 198 HOH HOH . J 4 HOH B 62 262 241 HOH HOH . J 4 HOH B 63 263 266 HOH HOH . J 4 HOH B 64 264 268 HOH HOH . J 4 HOH B 65 265 271 HOH HOH . J 4 HOH B 66 266 274 HOH HOH . J 4 HOH B 67 267 276 HOH HOH . J 4 HOH B 68 268 277 HOH HOH . J 4 HOH B 69 269 286 HOH HOH . J 4 HOH B 70 270 291 HOH HOH . J 4 HOH B 71 271 306 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 N LEU . . . H 3 -3.333 17.888 3.322 1 23.78 ? N LEU 103 B 1 HETATM 2 C CA LEU . . . H 3 -2.657 17.253 2.201 1 22.49 ? CA LEU 103 B 1 HETATM 3 C C LEU . . . H 3 -3.39 15.979 1.829 1 22.9 ? C LEU 103 B 1 HETATM 4 O O LEU . . . H 3 -3.2 15.504 0.716 1 24.97 ? O LEU 103 B 1 HETATM 5 C CB LEU . . . H 3 -1.191 16.947 2.532 1 22.84 ? CB LEU 103 B 1 HETATM 6 C CG LEU . . . H 3 -0.363 18.202 2.822 1 23.27 ? CG LEU 103 B 1 HETATM 7 C CD1 LEU . . . H 3 0.819 17.841 3.689 1 21.46 ? CD1 LEU 103 B 1 HETATM 8 C CD2 LEU . . . H 3 -0.079 18.961 1.487 0 25.67 ? CD2 LEU 103 B 1 HETATM 9 O OXT LEU . . . H 3 -4.191 15.407 2.592 1 22.78 ? OXT LEU 103 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 19 _model_server_stats.element_count 9 #