data_5KM9
#
_model_server_result.job_id            DMix4uGxC7G0yTJoFYQlDA 
_model_server_result.datetime_utc      '2024-11-30 00:26:22' 
_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          5km9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":203}' 
#
_entry.id    5KM9 
#
_exptl.entry_id    5KM9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_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            5KM9 
_cell.length_a            37.753 
_cell.length_b            74.771 
_cell.length_c            77.863 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5KM9 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             E 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 163 n n 
C1 C2 GOL sing 164 n n 
C1 H11 GOL sing 165 n n 
C1 H12 GOL sing 166 n n 
O1 HO1 GOL sing 167 n n 
C2 O2 GOL sing 168 n n 
C2 C3 GOL sing 169 n n 
C2 H2 GOL sing 170 n n 
O2 HO2 GOL sing 171 n n 
C3 O3 GOL sing 172 n n 
C3 H31 GOL sing 173 n n 
C3 H32 GOL sing 174 n n 
O3 HO3 GOL sing 175 n n 
#
_atom_sites.entry_id                     5KM9 
_atom_sites.fract_transf_matrix[1][1]    0.026488 
_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]    0.013374 
_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]    0.012843 
_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 ADN B 1 201 164 ADN ADN . 
D 3 PG4 B 1 202 165 PG4 PG4 . 
E 4 GOL B 1 203 1 GOL GOL . 
F 5 CL A 1 201 164 CL CL . 
G 6 HOH B 1 301 270 HOH HOH . 
G 6 HOH B 2 302 256 HOH HOH . 
G 6 HOH B 3 303 225 HOH HOH . 
G 6 HOH B 4 304 271 HOH HOH . 
G 6 HOH B 5 305 199 HOH HOH . 
G 6 HOH B 6 306 227 HOH HOH . 
G 6 HOH B 7 307 203 HOH HOH . 
G 6 HOH B 8 308 248 HOH HOH . 
G 6 HOH B 9 309 184 HOH HOH . 
G 6 HOH B 10 310 193 HOH HOH . 
G 6 HOH B 11 311 277 HOH HOH . 
G 6 HOH B 12 312 191 HOH HOH . 
G 6 HOH B 13 313 176 HOH HOH . 
G 6 HOH B 14 314 192 HOH HOH . 
G 6 HOH B 15 315 174 HOH HOH . 
G 6 HOH B 16 316 217 HOH HOH . 
G 6 HOH B 17 317 295 HOH HOH . 
G 6 HOH B 18 318 172 HOH HOH . 
G 6 HOH B 19 319 246 HOH HOH . 
G 6 HOH B 20 320 243 HOH HOH . 
G 6 HOH B 21 321 204 HOH HOH . 
G 6 HOH B 22 322 189 HOH HOH . 
G 6 HOH B 23 323 210 HOH HOH . 
G 6 HOH B 24 324 224 HOH HOH . 
G 6 HOH B 25 325 166 HOH HOH . 
G 6 HOH B 26 326 208 HOH HOH . 
G 6 HOH B 27 327 252 HOH HOH . 
G 6 HOH B 28 328 187 HOH HOH . 
G 6 HOH B 29 329 263 HOH HOH . 
G 6 HOH B 30 330 220 HOH HOH . 
G 6 HOH B 31 331 168 HOH HOH . 
G 6 HOH B 32 332 273 HOH HOH . 
G 6 HOH B 33 333 237 HOH HOH . 
G 6 HOH B 34 334 236 HOH HOH . 
G 6 HOH B 35 335 265 HOH HOH . 
G 6 HOH B 36 336 173 HOH HOH . 
G 6 HOH B 37 337 206 HOH HOH . 
G 6 HOH B 38 338 179 HOH HOH . 
G 6 HOH B 39 339 216 HOH HOH . 
G 6 HOH B 40 340 245 HOH HOH . 
G 6 HOH B 41 341 171 HOH HOH . 
G 6 HOH B 42 342 278 HOH HOH . 
G 6 HOH B 43 343 266 HOH HOH . 
G 6 HOH B 44 344 169 HOH HOH . 
G 6 HOH B 45 345 180 HOH HOH . 
G 6 HOH B 46 346 175 HOH HOH . 
G 6 HOH B 47 347 254 HOH HOH . 
G 6 HOH B 48 348 275 HOH HOH . 
G 6 HOH B 49 349 186 HOH HOH . 
G 6 HOH B 50 350 198 HOH HOH . 
G 6 HOH B 51 351 259 HOH HOH . 
G 6 HOH B 52 352 181 HOH HOH . 
G 6 HOH B 53 353 280 HOH HOH . 
G 6 HOH B 54 354 292 HOH HOH . 
G 6 HOH B 55 355 182 HOH HOH . 
G 6 HOH B 56 356 262 HOH HOH . 
G 6 HOH B 57 357 261 HOH HOH . 
G 6 HOH B 58 358 257 HOH HOH . 
G 6 HOH B 59 359 9 HOH HOH . 
G 6 HOH B 60 360 177 HOH HOH . 
G 6 HOH B 61 361 201 HOH HOH . 
G 6 HOH B 62 362 228 HOH HOH . 
G 6 HOH B 63 363 202 HOH HOH . 
G 6 HOH B 64 364 223 HOH HOH . 
G 6 HOH B 65 365 3 HOH HOH . 
G 6 HOH B 66 366 253 HOH HOH . 
G 6 HOH B 67 367 214 HOH HOH . 
G 6 HOH B 68 368 241 HOH HOH . 
G 6 HOH B 69 369 200 HOH HOH . 
G 6 HOH B 70 370 215 HOH HOH . 
G 6 HOH B 71 371 196 HOH HOH . 
G 6 HOH B 72 372 269 HOH HOH . 
G 6 HOH B 73 373 181 HOH HOH . 
G 6 HOH B 74 374 301 HOH HOH . 
G 6 HOH B 75 375 209 HOH HOH . 
G 6 HOH B 76 376 170 HOH HOH . 
G 6 HOH B 77 377 2 HOH HOH . 
G 6 HOH B 78 378 188 HOH HOH . 
G 6 HOH B 79 379 195 HOH HOH . 
G 6 HOH B 80 380 190 HOH HOH . 
G 6 HOH B 81 381 194 HOH HOH . 
G 6 HOH B 82 382 178 HOH HOH . 
G 6 HOH B 83 383 255 HOH HOH . 
G 6 HOH B 84 384 185 HOH HOH . 
G 6 HOH B 85 385 240 HOH HOH . 
G 6 HOH B 86 386 207 HOH HOH . 
G 6 HOH B 87 387 197 HOH HOH . 
G 6 HOH B 88 388 213 HOH HOH . 
G 6 HOH B 89 389 260 HOH HOH . 
G 6 HOH B 90 390 167 HOH HOH . 
G 6 HOH B 91 391 212 HOH HOH . 
G 6 HOH B 92 392 178 HOH HOH . 
G 6 HOH B 93 393 290 HOH HOH . 
G 6 HOH B 94 394 293 HOH HOH . 
G 6 HOH B 95 395 221 HOH HOH . 
G 6 HOH B 96 396 222 HOH HOH . 
G 6 HOH B 97 397 226 HOH HOH . 
G 6 HOH B 98 398 250 HOH HOH . 
G 6 HOH B 99 399 267 HOH HOH . 
G 6 HOH B 100 400 285 HOH HOH . 
G 6 HOH B 101 401 234 HOH HOH . 
G 6 HOH B 102 402 279 HOH HOH . 
G 6 HOH B 103 403 272 HOH HOH . 
G 6 HOH B 104 404 211 HOH HOH . 
G 6 HOH B 105 405 183 HOH HOH . 
G 6 HOH B 106 406 296 HOH HOH . 
G 6 HOH B 107 407 274 HOH HOH . 
G 6 HOH B 108 408 235 HOH HOH . 
G 6 HOH B 109 409 5 HOH HOH . 
G 6 HOH B 110 410 230 HOH HOH . 
G 6 HOH B 111 411 297 HOH HOH . 
G 6 HOH B 112 412 264 HOH HOH . 
G 6 HOH B 113 413 282 HOH HOH . 
G 6 HOH B 114 414 229 HOH HOH . 
G 6 HOH B 115 415 238 HOH HOH . 
G 6 HOH B 116 416 234 HOH HOH . 
G 6 HOH B 117 417 284 HOH HOH . 
G 6 HOH B 118 418 219 HOH HOH . 
G 6 HOH B 119 419 283 HOH HOH . 
G 6 HOH B 120 420 205 HOH HOH . 
G 6 HOH B 121 421 251 HOH HOH . 
G 6 HOH B 122 422 233 HOH HOH . 
G 6 HOH B 123 423 247 HOH HOH . 
G 6 HOH B 124 424 249 HOH HOH . 
G 6 HOH B 125 425 239 HOH HOH . 
G 6 HOH B 126 426 232 HOH HOH . 
G 6 HOH B 127 427 286 HOH HOH . 
G 6 HOH B 128 428 258 HOH HOH . 
G 6 HOH B 129 429 299 HOH HOH . 
G 6 HOH B 130 430 281 HOH HOH . 
H 6 HOH A 1 301 227 HOH HOH . 
H 6 HOH A 2 302 251 HOH HOH . 
H 6 HOH A 3 303 247 HOH HOH . 
H 6 HOH A 4 304 242 HOH HOH . 
H 6 HOH A 5 305 214 HOH HOH . 
H 6 HOH A 6 306 256 HOH HOH . 
H 6 HOH A 7 307 246 HOH HOH . 
H 6 HOH A 8 308 236 HOH HOH . 
H 6 HOH A 9 309 235 HOH HOH . 
H 6 HOH A 10 310 184 HOH HOH . 
H 6 HOH A 11 311 273 HOH HOH . 
H 6 HOH A 12 312 211 HOH HOH . 
H 6 HOH A 13 313 278 HOH HOH . 
H 6 HOH A 14 314 231 HOH HOH . 
H 6 HOH A 15 315 194 HOH HOH . 
H 6 HOH A 16 316 182 HOH HOH . 
H 6 HOH A 17 317 222 HOH HOH . 
H 6 HOH A 18 318 238 HOH HOH . 
H 6 HOH A 19 319 219 HOH HOH . 
H 6 HOH A 20 320 223 HOH HOH . 
H 6 HOH A 21 321 224 HOH HOH . 
H 6 HOH A 22 322 199 HOH HOH . 
H 6 HOH A 23 323 169 HOH HOH . 
H 6 HOH A 24 324 167 HOH HOH . 
H 6 HOH A 25 325 255 HOH HOH . 
H 6 HOH A 26 326 220 HOH HOH . 
H 6 HOH A 27 327 207 HOH HOH . 
H 6 HOH A 28 328 197 HOH HOH . 
H 6 HOH A 29 329 187 HOH HOH . 
H 6 HOH A 30 330 191 HOH HOH . 
H 6 HOH A 31 331 172 HOH HOH . 
H 6 HOH A 32 332 185 HOH HOH . 
H 6 HOH A 33 333 204 HOH HOH . 
H 6 HOH A 34 334 217 HOH HOH . 
H 6 HOH A 35 335 171 HOH HOH . 
H 6 HOH A 36 336 196 HOH HOH . 
H 6 HOH A 37 337 174 HOH HOH . 
H 6 HOH A 38 338 209 HOH HOH . 
H 6 HOH A 39 339 165 HOH HOH . 
H 6 HOH A 40 340 193 HOH HOH . 
H 6 HOH A 41 341 263 HOH HOH . 
H 6 HOH A 42 342 190 HOH HOH . 
H 6 HOH A 43 343 221 HOH HOH . 
H 6 HOH A 44 344 228 HOH HOH . 
H 6 HOH A 45 345 189 HOH HOH . 
H 6 HOH A 46 346 177 HOH HOH . 
H 6 HOH A 47 347 173 HOH HOH . 
H 6 HOH A 48 348 170 HOH HOH . 
H 6 HOH A 49 349 203 HOH HOH . 
H 6 HOH A 50 350 183 HOH HOH . 
H 6 HOH A 51 351 253 HOH HOH . 
H 6 HOH A 52 352 216 HOH HOH . 
H 6 HOH A 53 353 240 HOH HOH . 
H 6 HOH A 54 354 195 HOH HOH . 
H 6 HOH A 55 355 8 HOH HOH . 
H 6 HOH A 56 356 218 HOH HOH . 
H 6 HOH A 57 357 213 HOH HOH . 
H 6 HOH A 58 358 186 HOH HOH . 
H 6 HOH A 59 359 239 HOH HOH . 
H 6 HOH A 60 360 168 HOH HOH . 
H 6 HOH A 61 361 188 HOH HOH . 
H 6 HOH A 62 362 192 HOH HOH . 
H 6 HOH A 63 363 166 HOH HOH . 
H 6 HOH A 64 364 200 HOH HOH . 
H 6 HOH A 65 365 210 HOH HOH . 
H 6 HOH A 66 366 232 HOH HOH . 
H 6 HOH A 67 367 279 HOH HOH . 
H 6 HOH A 68 368 179 HOH HOH . 
H 6 HOH A 69 369 241 HOH HOH . 
H 6 HOH A 70 370 176 HOH HOH . 
H 6 HOH A 71 371 175 HOH HOH . 
H 6 HOH A 72 372 215 HOH HOH . 
H 6 HOH A 73 373 208 HOH HOH . 
H 6 HOH A 74 374 1 HOH HOH . 
H 6 HOH A 75 375 198 HOH HOH . 
H 6 HOH A 76 376 205 HOH HOH . 
H 6 HOH A 77 377 277 HOH HOH . 
H 6 HOH A 78 378 252 HOH HOH . 
H 6 HOH A 79 379 269 HOH HOH . 
H 6 HOH A 80 380 245 HOH HOH . 
H 6 HOH A 81 381 265 HOH HOH . 
H 6 HOH A 82 382 202 HOH HOH . 
H 6 HOH A 83 383 267 HOH HOH . 
H 6 HOH A 84 384 180 HOH HOH . 
H 6 HOH A 85 385 250 HOH HOH . 
H 6 HOH A 86 386 254 HOH HOH . 
H 6 HOH A 87 387 7 HOH HOH . 
H 6 HOH A 88 388 264 HOH HOH . 
H 6 HOH A 89 389 258 HOH HOH . 
H 6 HOH A 90 390 244 HOH HOH . 
H 6 HOH A 91 391 237 HOH HOH . 
H 6 HOH A 92 392 230 HOH HOH . 
H 6 HOH A 93 393 226 HOH HOH . 
H 6 HOH A 94 394 201 HOH HOH . 
H 6 HOH A 95 395 272 HOH HOH . 
H 6 HOH A 96 396 6 HOH HOH . 
H 6 HOH A 97 397 248 HOH HOH . 
H 6 HOH A 98 398 233 HOH HOH . 
H 6 HOH A 99 399 243 HOH HOH . 
H 6 HOH A 100 400 268 HOH HOH . 
H 6 HOH A 101 401 268 HOH HOH . 
H 6 HOH A 102 402 10 HOH HOH . 
H 6 HOH A 103 403 275 HOH HOH . 
H 6 HOH A 104 404 231 HOH HOH . 
H 6 HOH A 105 405 287 HOH HOH . 
H 6 HOH A 106 406 261 HOH HOH . 
H 6 HOH A 107 407 212 HOH HOH . 
H 6 HOH A 108 408 225 HOH HOH . 
H 6 HOH A 109 409 4 HOH HOH . 
H 6 HOH A 110 410 206 HOH HOH . 
H 6 HOH A 111 411 260 HOH HOH . 
H 6 HOH A 112 412 276 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 . . . E 4 -16.501 1.265 1.726 1 30.06 ? C1 GOL 203 B 1 
HETATM 2 O O1 GOL . . . E 4 -17.74 0.709 2.109 1 35 ? O1 GOL 203 B 1 
HETATM 3 C C2 GOL . . . E 4 -15.632 0.195 1.079 1 30.25 ? C2 GOL 203 B 1 
HETATM 4 O O2 GOL . . . E 4 -15.493 0.475 -0.294 1 33.86 ? O2 GOL 203 B 1 
HETATM 5 C C3 GOL . . . E 4 -14.248 0.241 1.7 1 29.88 ? C3 GOL 203 B 1 
HETATM 6 O O3 GOL . . . E 4 -14.278 -0.198 3.041 1 34.21 ? O3 GOL 203 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           282 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           6 
#