data_5KHM # _model_server_result.job_id sNAp4xrvBZOyspA5wkOAlQ _model_server_result.datetime_utc '2024-12-23 01:48:01' _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 5khm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":202}' # _entry.id 5KHM # _exptl.entry_id 5KHM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 3 _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 5KHM _cell.length_a 41.754 _cell.length_b 59.769 _cell.length_c 107.151 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KHM _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 3 D N N ? 3 E N N ? 3 F N N # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 C1 O1 GOL sing 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 5KHM _atom_sites.fract_transf_matrix[1][1] 0.02395 _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] 0.016731 _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] 0.009333 _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 XNH A 1 201 1 XNH INH . D 3 GOL A 1 202 2 GOL GOL . E 3 GOL B 1 201 1 GOL GOL . F 3 GOL B 1 202 3 GOL GOL . G 4 HOH A 1 301 274 HOH HOH . G 4 HOH A 2 302 121 HOH HOH . G 4 HOH A 3 303 275 HOH HOH . G 4 HOH A 4 304 25 HOH HOH . G 4 HOH A 5 305 153 HOH HOH . G 4 HOH A 6 306 221 HOH HOH . G 4 HOH A 7 307 173 HOH HOH . G 4 HOH A 8 308 248 HOH HOH . G 4 HOH A 9 309 133 HOH HOH . G 4 HOH A 10 310 268 HOH HOH . G 4 HOH A 11 311 312 HOH HOH . G 4 HOH A 12 312 200 HOH HOH . G 4 HOH A 13 313 82 HOH HOH . G 4 HOH A 14 314 179 HOH HOH . G 4 HOH A 15 315 193 HOH HOH . G 4 HOH A 16 316 186 HOH HOH . G 4 HOH A 17 317 54 HOH HOH . G 4 HOH A 18 318 23 HOH HOH . G 4 HOH A 19 319 309 HOH HOH . G 4 HOH A 20 320 95 HOH HOH . G 4 HOH A 21 321 238 HOH HOH . G 4 HOH A 22 322 128 HOH HOH . G 4 HOH A 23 323 88 HOH HOH . G 4 HOH A 24 324 112 HOH HOH . G 4 HOH A 25 325 156 HOH HOH . G 4 HOH A 26 326 284 HOH HOH . G 4 HOH A 27 327 149 HOH HOH . G 4 HOH A 28 328 14 HOH HOH . G 4 HOH A 29 329 191 HOH HOH . G 4 HOH A 30 330 4 HOH HOH . G 4 HOH A 31 331 122 HOH HOH . G 4 HOH A 32 332 214 HOH HOH . G 4 HOH A 33 333 85 HOH HOH . G 4 HOH A 34 334 306 HOH HOH . G 4 HOH A 35 335 41 HOH HOH . G 4 HOH A 36 336 315 HOH HOH . G 4 HOH A 37 337 265 HOH HOH . G 4 HOH A 38 338 51 HOH HOH . G 4 HOH A 39 339 288 HOH HOH . G 4 HOH A 40 340 94 HOH HOH . G 4 HOH A 41 341 58 HOH HOH . G 4 HOH A 42 342 140 HOH HOH . G 4 HOH A 43 343 32 HOH HOH . G 4 HOH A 44 344 172 HOH HOH . G 4 HOH A 45 345 104 HOH HOH . G 4 HOH A 46 346 98 HOH HOH . G 4 HOH A 47 347 87 HOH HOH . G 4 HOH A 48 348 31 HOH HOH . G 4 HOH A 49 349 62 HOH HOH . G 4 HOH A 50 350 3 HOH HOH . G 4 HOH A 51 351 93 HOH HOH . G 4 HOH A 52 352 287 HOH HOH . G 4 HOH A 53 353 30 HOH HOH . G 4 HOH A 54 354 56 HOH HOH . G 4 HOH A 55 355 63 HOH HOH . G 4 HOH A 56 356 124 HOH HOH . G 4 HOH A 57 357 145 HOH HOH . G 4 HOH A 58 358 313 HOH HOH . G 4 HOH A 59 359 119 HOH HOH . G 4 HOH A 60 360 19 HOH HOH . G 4 HOH A 61 361 15 HOH HOH . G 4 HOH A 62 362 263 HOH HOH . G 4 HOH A 63 363 72 HOH HOH . G 4 HOH A 64 364 132 HOH HOH . G 4 HOH A 65 365 34 HOH HOH . G 4 HOH A 66 366 314 HOH HOH . G 4 HOH A 67 367 49 HOH HOH . G 4 HOH A 68 368 201 HOH HOH . G 4 HOH A 69 369 60 HOH HOH . G 4 HOH A 70 370 168 HOH HOH . G 4 HOH A 71 371 74 HOH HOH . G 4 HOH A 72 372 131 HOH HOH . G 4 HOH A 73 373 230 HOH HOH . G 4 HOH A 74 374 91 HOH HOH . G 4 HOH A 75 375 286 HOH HOH . G 4 HOH A 76 376 9 HOH HOH . G 4 HOH A 77 377 209 HOH HOH . G 4 HOH A 78 378 162 HOH HOH . G 4 HOH A 79 379 151 HOH HOH . G 4 HOH A 80 380 118 HOH HOH . G 4 HOH A 81 381 232 HOH HOH . G 4 HOH A 82 382 123 HOH HOH . G 4 HOH A 83 383 44 HOH HOH . G 4 HOH A 84 384 71 HOH HOH . G 4 HOH A 85 385 42 HOH HOH . G 4 HOH A 86 386 80 HOH HOH . G 4 HOH A 87 387 35 HOH HOH . G 4 HOH A 88 388 18 HOH HOH . G 4 HOH A 89 389 233 HOH HOH . G 4 HOH A 90 390 135 HOH HOH . G 4 HOH A 91 391 139 HOH HOH . G 4 HOH A 92 392 158 HOH HOH . G 4 HOH A 93 393 67 HOH HOH . G 4 HOH A 94 394 161 HOH HOH . G 4 HOH A 95 395 180 HOH HOH . G 4 HOH A 96 396 277 HOH HOH . G 4 HOH A 97 397 299 HOH HOH . G 4 HOH A 98 398 218 HOH HOH . G 4 HOH A 99 399 20 HOH HOH . G 4 HOH A 100 400 57 HOH HOH . G 4 HOH A 101 401 89 HOH HOH . G 4 HOH A 102 402 212 HOH HOH . G 4 HOH A 103 403 134 HOH HOH . G 4 HOH A 104 404 137 HOH HOH . G 4 HOH A 105 405 169 HOH HOH . G 4 HOH A 106 406 297 HOH HOH . G 4 HOH A 107 407 160 HOH HOH . G 4 HOH A 108 408 257 HOH HOH . G 4 HOH A 109 409 182 HOH HOH . G 4 HOH A 110 410 302 HOH HOH . G 4 HOH A 111 411 285 HOH HOH . G 4 HOH A 112 412 207 HOH HOH . G 4 HOH A 113 413 211 HOH HOH . G 4 HOH A 114 414 78 HOH HOH . G 4 HOH A 115 415 177 HOH HOH . G 4 HOH A 116 416 190 HOH HOH . G 4 HOH A 117 417 227 HOH HOH . G 4 HOH A 118 418 197 HOH HOH . G 4 HOH A 119 419 144 HOH HOH . G 4 HOH A 120 420 259 HOH HOH . G 4 HOH A 121 421 13 HOH HOH . G 4 HOH A 122 422 270 HOH HOH . G 4 HOH A 123 423 196 HOH HOH . G 4 HOH A 124 424 283 HOH HOH . G 4 HOH A 125 425 155 HOH HOH . G 4 HOH A 126 426 92 HOH HOH . G 4 HOH A 127 427 154 HOH HOH . G 4 HOH A 128 428 141 HOH HOH . G 4 HOH A 129 429 237 HOH HOH . G 4 HOH A 130 430 204 HOH HOH . G 4 HOH A 131 431 195 HOH HOH . G 4 HOH A 132 432 258 HOH HOH . G 4 HOH A 133 433 166 HOH HOH . G 4 HOH A 134 434 165 HOH HOH . G 4 HOH A 135 435 97 HOH HOH . G 4 HOH A 136 436 225 HOH HOH . G 4 HOH A 137 437 102 HOH HOH . G 4 HOH A 138 438 269 HOH HOH . G 4 HOH A 139 439 223 HOH HOH . G 4 HOH A 140 440 295 HOH HOH . G 4 HOH A 141 441 244 HOH HOH . G 4 HOH A 142 442 278 HOH HOH . H 4 HOH B 1 301 142 HOH HOH . H 4 HOH B 2 302 247 HOH HOH . H 4 HOH B 3 303 136 HOH HOH . H 4 HOH B 4 304 276 HOH HOH . H 4 HOH B 5 305 170 HOH HOH . H 4 HOH B 6 306 81 HOH HOH . H 4 HOH B 7 307 126 HOH HOH . H 4 HOH B 8 308 253 HOH HOH . H 4 HOH B 9 309 199 HOH HOH . H 4 HOH B 10 310 1 HOH HOH . H 4 HOH B 11 311 150 HOH HOH . H 4 HOH B 12 312 280 HOH HOH . H 4 HOH B 13 313 138 HOH HOH . H 4 HOH B 14 314 109 HOH HOH . H 4 HOH B 15 315 26 HOH HOH . H 4 HOH B 16 316 176 HOH HOH . H 4 HOH B 17 317 59 HOH HOH . H 4 HOH B 18 318 262 HOH HOH . H 4 HOH B 19 319 292 HOH HOH . H 4 HOH B 20 320 8 HOH HOH . H 4 HOH B 21 321 167 HOH HOH . H 4 HOH B 22 322 164 HOH HOH . H 4 HOH B 23 323 159 HOH HOH . H 4 HOH B 24 324 21 HOH HOH . H 4 HOH B 25 325 240 HOH HOH . H 4 HOH B 26 326 107 HOH HOH . H 4 HOH B 27 327 226 HOH HOH . H 4 HOH B 28 328 12 HOH HOH . H 4 HOH B 29 329 45 HOH HOH . H 4 HOH B 30 330 36 HOH HOH . H 4 HOH B 31 331 208 HOH HOH . H 4 HOH B 32 332 316 HOH HOH . H 4 HOH B 33 333 100 HOH HOH . H 4 HOH B 34 334 114 HOH HOH . H 4 HOH B 35 335 75 HOH HOH . H 4 HOH B 36 336 294 HOH HOH . H 4 HOH B 37 337 188 HOH HOH . H 4 HOH B 38 338 183 HOH HOH . H 4 HOH B 39 339 308 HOH HOH . H 4 HOH B 40 340 243 HOH HOH . H 4 HOH B 41 341 256 HOH HOH . H 4 HOH B 42 342 246 HOH HOH . H 4 HOH B 43 343 86 HOH HOH . H 4 HOH B 44 344 113 HOH HOH . H 4 HOH B 45 345 68 HOH HOH . H 4 HOH B 46 346 76 HOH HOH . H 4 HOH B 47 347 2 HOH HOH . H 4 HOH B 48 348 254 HOH HOH . H 4 HOH B 49 349 307 HOH HOH . H 4 HOH B 50 350 6 HOH HOH . H 4 HOH B 51 351 202 HOH HOH . H 4 HOH B 52 352 310 HOH HOH . H 4 HOH B 53 353 110 HOH HOH . H 4 HOH B 54 354 37 HOH HOH . H 4 HOH B 55 355 127 HOH HOH . H 4 HOH B 56 356 46 HOH HOH . H 4 HOH B 57 357 152 HOH HOH . H 4 HOH B 58 358 215 HOH HOH . H 4 HOH B 59 359 125 HOH HOH . H 4 HOH B 60 360 39 HOH HOH . H 4 HOH B 61 361 117 HOH HOH . H 4 HOH B 62 362 305 HOH HOH . H 4 HOH B 63 363 73 HOH HOH . H 4 HOH B 64 364 120 HOH HOH . H 4 HOH B 65 365 157 HOH HOH . H 4 HOH B 66 366 210 HOH HOH . H 4 HOH B 67 367 7 HOH HOH . H 4 HOH B 68 368 174 HOH HOH . H 4 HOH B 69 369 48 HOH HOH . H 4 HOH B 70 370 106 HOH HOH . H 4 HOH B 71 371 115 HOH HOH . H 4 HOH B 72 372 217 HOH HOH . H 4 HOH B 73 373 192 HOH HOH . H 4 HOH B 74 374 53 HOH HOH . H 4 HOH B 75 375 213 HOH HOH . H 4 HOH B 76 376 29 HOH HOH . H 4 HOH B 77 377 47 HOH HOH . H 4 HOH B 78 378 16 HOH HOH . H 4 HOH B 79 379 178 HOH HOH . H 4 HOH B 80 380 184 HOH HOH . H 4 HOH B 81 381 116 HOH HOH . H 4 HOH B 82 382 129 HOH HOH . H 4 HOH B 83 383 266 HOH HOH . H 4 HOH B 84 384 55 HOH HOH . H 4 HOH B 85 385 99 HOH HOH . H 4 HOH B 86 386 241 HOH HOH . H 4 HOH B 87 387 52 HOH HOH . H 4 HOH B 88 388 77 HOH HOH . H 4 HOH B 89 389 84 HOH HOH . H 4 HOH B 90 390 296 HOH HOH . H 4 HOH B 91 391 40 HOH HOH . H 4 HOH B 92 392 250 HOH HOH . H 4 HOH B 93 393 171 HOH HOH . H 4 HOH B 94 394 10 HOH HOH . H 4 HOH B 95 395 24 HOH HOH . H 4 HOH B 96 396 234 HOH HOH . H 4 HOH B 97 397 96 HOH HOH . H 4 HOH B 98 398 103 HOH HOH . H 4 HOH B 99 399 303 HOH HOH . H 4 HOH B 100 400 206 HOH HOH . H 4 HOH B 101 401 194 HOH HOH . H 4 HOH B 102 402 27 HOH HOH . H 4 HOH B 103 403 279 HOH HOH . H 4 HOH B 104 404 267 HOH HOH . H 4 HOH B 105 405 219 HOH HOH . H 4 HOH B 106 406 148 HOH HOH . H 4 HOH B 107 407 79 HOH HOH . H 4 HOH B 108 408 255 HOH HOH . H 4 HOH B 109 409 298 HOH HOH . H 4 HOH B 110 410 273 HOH HOH . H 4 HOH B 111 411 64 HOH HOH . H 4 HOH B 112 412 228 HOH HOH . H 4 HOH B 113 413 239 HOH HOH . H 4 HOH B 114 414 236 HOH HOH . H 4 HOH B 115 415 293 HOH HOH . H 4 HOH B 116 416 143 HOH HOH . H 4 HOH B 117 417 222 HOH HOH . H 4 HOH B 118 418 317 HOH HOH . H 4 HOH B 119 419 111 HOH HOH . H 4 HOH B 120 420 163 HOH HOH . H 4 HOH B 121 421 108 HOH HOH . H 4 HOH B 122 422 146 HOH HOH . H 4 HOH B 123 423 181 HOH HOH . H 4 HOH B 124 424 83 HOH HOH . H 4 HOH B 125 425 289 HOH HOH . H 4 HOH B 126 426 242 HOH HOH . H 4 HOH B 127 427 205 HOH HOH . H 4 HOH B 128 428 281 HOH HOH . H 4 HOH B 129 429 69 HOH HOH . H 4 HOH B 130 430 251 HOH HOH . H 4 HOH B 131 431 90 HOH HOH . H 4 HOH B 132 432 220 HOH HOH . H 4 HOH B 133 433 231 HOH HOH . H 4 HOH B 134 434 304 HOH HOH . H 4 HOH B 135 435 216 HOH HOH . H 4 HOH B 136 436 175 HOH HOH . H 4 HOH B 137 437 311 HOH HOH . H 4 HOH B 138 438 224 HOH HOH . H 4 HOH B 139 439 185 HOH HOH . H 4 HOH B 140 440 271 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 C1 GOL . . . F 3 59.549 76.58 113.097 1 38.81 ? C1 GOL 202 B 1 HETATM 2 O O1 GOL . . . F 3 60.501 77.204 113.955 1 27.31 ? O1 GOL 202 B 1 HETATM 3 C C2 GOL . . . F 3 59.425 75.101 113.384 1 46.06 ? C2 GOL 202 B 1 HETATM 4 O O2 GOL . . . F 3 58.685 74.473 112.324 1 51.16 ? O2 GOL 202 B 1 HETATM 5 C C3 GOL . . . F 3 60.777 74.439 113.514 1 44.71 ? C3 GOL 202 B 1 HETATM 6 O O3 GOL . . . F 3 61.716 74.988 112.588 1 37.33 ? O3 GOL 202 B 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 220 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #