data_5R8H # _model_server_result.job_id xN0bR0wdqYUv1PDTwZS7Lg _model_server_result.datetime_utc '2025-01-14 15:52:57' _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 5r8h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 5R8H # _exptl.entry_id 5R8H _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 245.32 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-[2-(1H-benzimidazol-2-yl)ethyl]-2,2-dimethylpropanamide _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 5R8H _cell.length_a 54.61 _cell.length_b 54.61 _cell.length_c 75.47 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5R8H _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43' # _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,E _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 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C14 H19 N3 O' _chem_comp.formula_weight 245.32 _chem_comp.id T91 _chem_comp.mon_nstd_flag . _chem_comp.name N-[2-(1H-benzimidazol-2-yl)ethyl]-2,2-dimethylpropanamide _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 C12 C11 T91 doub 294 n y C12 C13 T91 sing 295 n y C11 C10 T91 sing 296 n y C13 N2 T91 sing 297 n y C13 C8 T91 doub 298 n y N2 C7 T91 sing 299 n y C10 C9 T91 doub 300 n y C8 C9 T91 sing 301 n y C8 N1 T91 sing 302 n y C7 N1 T91 doub 303 n y C7 C6 T91 sing 304 n n C5 C6 T91 sing 305 n n C5 H2 T91 sing 306 n n C5 H3 T91 sing 307 n n C6 H5 T91 sing 308 n n C6 H6 T91 sing 309 n n C10 H7 T91 sing 310 n n C11 H8 T91 sing 311 n n C12 H9 T91 sing 312 n n C9 H10 T91 sing 313 n n C5 N T91 sing 314 n n N C4 T91 sing 315 n n C4 C1 T91 sing 316 n n C1 C T91 sing 317 n n C1 C3 T91 sing 318 n n C1 C2 T91 sing 319 n n C4 O T91 doub 320 n n N H4 T91 sing 321 n n C H11 T91 sing 322 n n C H12 T91 sing 323 n n C H13 T91 sing 324 n n C3 H14 T91 sing 325 n n C3 H15 T91 sing 326 n n C3 H16 T91 sing 327 n n C2 H17 T91 sing 328 n n C2 H18 T91 sing 329 n n C2 H19 T91 sing 330 n n N2 H1 T91 sing 331 n n # _atom_sites.entry_id 5R8H _atom_sites.fract_transf_matrix[1][1] 0.018312 _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] 0.018312 _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] 0.01325 _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 SO4 A 1 201 160 SO4 SO4 . C 2 SO4 A 1 202 161 SO4 SO4 . D 3 T91 A 1 203 401 T91 LIG . E 4 HOH A 1 301 29 HOH HOH . E 4 HOH A 2 302 326 HOH HOH . E 4 HOH A 3 303 287 HOH HOH . E 4 HOH A 4 304 303 HOH HOH . E 4 HOH A 5 305 240 HOH HOH . E 4 HOH A 6 306 271 HOH HOH . E 4 HOH A 7 307 34 HOH HOH . E 4 HOH A 8 308 21 HOH HOH . E 4 HOH A 9 309 276 HOH HOH . E 4 HOH A 10 310 267 HOH HOH . E 4 HOH A 11 311 213 HOH HOH . E 4 HOH A 12 312 243 HOH HOH . E 4 HOH A 13 313 246 HOH HOH . E 4 HOH A 14 314 226 HOH HOH . E 4 HOH A 15 315 247 HOH HOH . E 4 HOH A 16 316 343 HOH HOH . E 4 HOH A 17 317 232 HOH HOH . E 4 HOH A 18 318 214 HOH HOH . E 4 HOH A 19 319 237 HOH HOH . E 4 HOH A 20 320 203 HOH HOH . E 4 HOH A 21 321 211 HOH HOH . E 4 HOH A 22 322 325 HOH HOH . E 4 HOH A 23 323 216 HOH HOH . E 4 HOH A 24 324 208 HOH HOH . E 4 HOH A 25 325 334 HOH HOH . E 4 HOH A 26 326 239 HOH HOH . E 4 HOH A 27 327 200 HOH HOH . E 4 HOH A 28 328 294 HOH HOH . E 4 HOH A 29 329 202 HOH HOH . E 4 HOH A 30 330 338 HOH HOH . E 4 HOH A 31 331 238 HOH HOH . E 4 HOH A 32 332 223 HOH HOH . E 4 HOH A 33 333 204 HOH HOH . E 4 HOH A 34 334 201 HOH HOH . E 4 HOH A 35 335 19 HOH HOH . E 4 HOH A 36 336 269 HOH HOH . E 4 HOH A 37 337 244 HOH HOH . E 4 HOH A 38 338 209 HOH HOH . E 4 HOH A 39 339 227 HOH HOH . E 4 HOH A 40 340 18 HOH HOH . E 4 HOH A 41 341 206 HOH HOH . E 4 HOH A 42 342 289 HOH HOH . E 4 HOH A 43 343 222 HOH HOH . E 4 HOH A 44 344 322 HOH HOH . E 4 HOH A 45 345 235 HOH HOH . E 4 HOH A 46 346 236 HOH HOH . E 4 HOH A 47 347 274 HOH HOH . E 4 HOH A 48 348 218 HOH HOH . E 4 HOH A 49 349 346 HOH HOH . E 4 HOH A 50 350 251 HOH HOH . E 4 HOH A 51 351 228 HOH HOH . E 4 HOH A 52 352 245 HOH HOH . E 4 HOH A 53 353 255 HOH HOH . E 4 HOH A 54 354 248 HOH HOH . E 4 HOH A 55 355 283 HOH HOH . E 4 HOH A 56 356 321 HOH HOH . E 4 HOH A 57 357 254 HOH HOH . E 4 HOH A 58 358 312 HOH HOH . E 4 HOH A 59 359 23 HOH HOH . E 4 HOH A 60 360 207 HOH HOH . E 4 HOH A 61 361 305 HOH HOH . E 4 HOH A 62 362 225 HOH HOH . E 4 HOH A 63 363 348 HOH HOH . E 4 HOH A 64 364 25 HOH HOH . E 4 HOH A 65 365 233 HOH HOH . E 4 HOH A 66 366 270 HOH HOH . E 4 HOH A 67 367 212 HOH HOH . E 4 HOH A 68 368 205 HOH HOH . E 4 HOH A 69 369 298 HOH HOH . E 4 HOH A 70 370 302 HOH HOH . E 4 HOH A 71 371 217 HOH HOH . E 4 HOH A 72 372 279 HOH HOH . E 4 HOH A 73 373 242 HOH HOH . E 4 HOH A 74 374 224 HOH HOH . E 4 HOH A 75 375 266 HOH HOH . E 4 HOH A 76 376 221 HOH HOH . E 4 HOH A 77 377 323 HOH HOH . E 4 HOH A 78 378 284 HOH HOH . E 4 HOH A 79 379 31 HOH HOH . E 4 HOH A 80 380 290 HOH HOH . E 4 HOH A 81 381 250 HOH HOH . E 4 HOH A 82 382 328 HOH HOH . E 4 HOH A 83 383 219 HOH HOH . E 4 HOH A 84 384 234 HOH HOH . E 4 HOH A 85 385 264 HOH HOH . E 4 HOH A 86 386 210 HOH HOH . E 4 HOH A 87 387 286 HOH HOH . E 4 HOH A 88 388 277 HOH HOH . E 4 HOH A 89 389 285 HOH HOH . E 4 HOH A 90 390 314 HOH HOH . E 4 HOH A 91 391 317 HOH HOH . E 4 HOH A 92 392 252 HOH HOH . E 4 HOH A 93 393 337 HOH HOH . E 4 HOH A 94 394 282 HOH HOH . E 4 HOH A 95 395 253 HOH HOH . E 4 HOH A 96 396 258 HOH HOH . E 4 HOH A 97 397 304 HOH HOH . E 4 HOH A 98 398 22 HOH HOH . E 4 HOH A 99 399 35 HOH HOH . E 4 HOH A 100 400 16 HOH HOH . E 4 HOH A 101 401 14 HOH HOH . E 4 HOH A 102 402 2 HOH HOH . E 4 HOH A 103 403 347 HOH HOH . E 4 HOH A 104 404 319 HOH HOH . E 4 HOH A 105 405 256 HOH HOH . E 4 HOH A 106 406 340 HOH HOH . E 4 HOH A 107 407 20 HOH HOH . E 4 HOH A 108 408 231 HOH HOH . E 4 HOH A 109 409 311 HOH HOH . E 4 HOH A 110 410 335 HOH HOH . E 4 HOH A 111 411 291 HOH HOH . E 4 HOH A 112 412 32 HOH HOH . E 4 HOH A 113 413 260 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 N1 T91 . . . D 3 50.954 8.886 63.037 0.4 37.57 ? N1 T91 203 A 1 HETATM 2 C C5 T91 . . . D 3 53.055 11.784 62.772 0.4 40.12 ? C5 T91 203 A 1 HETATM 3 C C6 T91 . . . D 3 53.034 10.251 63.039 0.4 42.89 ? C6 T91 203 A 1 HETATM 4 C C7 T91 . . . D 3 51.915 9.508 62.362 0.4 35.32 ? C7 T91 203 A 1 HETATM 5 C C8 T91 . . . D 3 49.974 8.492 62.125 0.4 35.58 ? C8 T91 203 A 1 HETATM 6 C C10 T91 . . . D 3 47.881 7.796 61.286 0.4 25.89 ? C10 T91 203 A 1 HETATM 7 C C13 T91 . . . D 3 50.42 8.818 60.831 0.4 32.6 ? C13 T91 203 A 1 HETATM 8 C C11 T91 . . . D 3 48.371 8.061 59.979 0.4 29.23 ? C11 T91 203 A 1 HETATM 9 C C12 T91 . . . D 3 49.627 8.584 59.77 0.4 27.64 ? C12 T91 203 A 1 HETATM 10 C C9 T91 . . . D 3 48.682 7.989 62.366 0.4 29.52 ? C9 T91 203 A 1 HETATM 11 N N2 T91 . . . D 3 51.709 9.503 61.024 0.4 33.57 ? N2 T91 203 A 1 # _model_server_stats.io_time_ms 55 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 11 #