data_3K8H
#
_model_server_result.job_id            7_2TuxkUQEDYh2DxnCwyGA 
_model_server_result.datetime_utc      '2025-09-06 23:16:04' 
_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          3k8h 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":300}' 
#
_entry.id    3K8H 
#
_exptl.entry_id    3K8H 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.174 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (4S)-2-METHYL-2,4-PENTANEDIOL 
_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          99.75 
_cell.angle_gamma         90 
_cell.entry_id            3K8H 
_cell.length_a            145.297 
_cell.length_b            44.764 
_cell.length_c            96.965 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3K8H 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,E 1 1 
B,F 1 2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 D N N 
#
_chem_comp.formula           'C6 H14 O2' 
_chem_comp.formula_weight    118.174 
_chem_comp.id                MPD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (4S)-2-METHYL-2,4-PENTANEDIOL 
_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
C1 C2 MPD sing 237 n n 
C1 H11 MPD sing 238 n n 
C1 H12 MPD sing 239 n n 
C1 H13 MPD sing 240 n n 
C2 O2 MPD sing 241 n n 
C2 CM MPD sing 242 n n 
C2 C3 MPD sing 243 n n 
O2 HO2 MPD sing 244 n n 
CM HM1 MPD sing 245 n n 
CM HM2 MPD sing 246 n n 
CM HM3 MPD sing 247 n n 
C3 C4 MPD sing 248 n n 
C3 H31 MPD sing 249 n n 
C3 H32 MPD sing 250 n n 
C4 O4 MPD sing 251 n n 
C4 C5 MPD sing 252 n n 
C4 H4 MPD sing 253 n n 
O4 HO4 MPD sing 254 n n 
C5 H51 MPD sing 255 n n 
C5 H52 MPD sing 256 n n 
C5 H53 MPD sing 257 n n 
#
_atom_sites.entry_id                     3K8H 
_atom_sites.fract_transf_matrix[1][1]    0.006882 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001183 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.022339 
_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]    0.010464 
_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 MPD A 1 300 300 MPD MPD . 
D 2 MPD A 1 301 301 MPD MPD . 
E 3 HOH A 1 303 303 HOH HOH . 
E 3 HOH A 2 305 305 HOH HOH . 
E 3 HOH A 3 308 308 HOH HOH . 
E 3 HOH A 4 311 311 HOH HOH . 
E 3 HOH A 5 312 312 HOH HOH . 
E 3 HOH A 6 313 313 HOH HOH . 
E 3 HOH A 7 316 316 HOH HOH . 
E 3 HOH A 8 318 318 HOH HOH . 
E 3 HOH A 9 321 321 HOH HOH . 
E 3 HOH A 10 323 323 HOH HOH . 
E 3 HOH A 11 326 326 HOH HOH . 
E 3 HOH A 12 331 331 HOH HOH . 
E 3 HOH A 13 333 333 HOH HOH . 
E 3 HOH A 14 334 334 HOH HOH . 
E 3 HOH A 15 335 335 HOH HOH . 
E 3 HOH A 16 336 336 HOH HOH . 
E 3 HOH A 17 339 339 HOH HOH . 
E 3 HOH A 18 341 341 HOH HOH . 
E 3 HOH A 19 342 342 HOH HOH . 
E 3 HOH A 20 344 344 HOH HOH . 
E 3 HOH A 21 345 345 HOH HOH . 
E 3 HOH A 22 346 346 HOH HOH . 
E 3 HOH A 23 348 348 HOH HOH . 
E 3 HOH A 24 349 349 HOH HOH . 
E 3 HOH A 25 350 350 HOH HOH . 
E 3 HOH A 26 352 352 HOH HOH . 
E 3 HOH A 27 355 355 HOH HOH . 
E 3 HOH A 28 356 356 HOH HOH . 
E 3 HOH A 29 358 358 HOH HOH . 
E 3 HOH A 30 359 359 HOH HOH . 
E 3 HOH A 31 362 362 HOH HOH . 
E 3 HOH A 32 363 363 HOH HOH . 
E 3 HOH A 33 368 368 HOH HOH . 
E 3 HOH A 34 369 369 HOH HOH . 
E 3 HOH A 35 370 370 HOH HOH . 
E 3 HOH A 36 371 371 HOH HOH . 
E 3 HOH A 37 372 372 HOH HOH . 
E 3 HOH A 38 373 373 HOH HOH . 
E 3 HOH A 39 374 374 HOH HOH . 
E 3 HOH A 40 377 377 HOH HOH . 
E 3 HOH A 41 380 380 HOH HOH . 
E 3 HOH A 42 384 384 HOH HOH . 
E 3 HOH A 43 388 388 HOH HOH . 
E 3 HOH A 44 389 389 HOH HOH . 
E 3 HOH A 45 390 390 HOH HOH . 
E 3 HOH A 46 391 391 HOH HOH . 
E 3 HOH A 47 392 392 HOH HOH . 
E 3 HOH A 48 393 393 HOH HOH . 
E 3 HOH A 49 394 394 HOH HOH . 
E 3 HOH A 50 395 395 HOH HOH . 
E 3 HOH A 51 396 396 HOH HOH . 
E 3 HOH A 52 397 397 HOH HOH . 
E 3 HOH A 53 406 406 HOH HOH . 
E 3 HOH A 54 407 407 HOH HOH . 
E 3 HOH A 55 408 408 HOH HOH . 
E 3 HOH A 56 410 410 HOH HOH . 
E 3 HOH A 57 411 411 HOH HOH . 
E 3 HOH A 58 412 412 HOH HOH . 
E 3 HOH A 59 413 413 HOH HOH . 
E 3 HOH A 60 414 414 HOH HOH . 
E 3 HOH A 61 415 415 HOH HOH . 
E 3 HOH A 62 416 416 HOH HOH . 
E 3 HOH A 63 419 419 HOH HOH . 
E 3 HOH A 64 420 420 HOH HOH . 
E 3 HOH A 65 421 421 HOH HOH . 
E 3 HOH A 66 429 429 HOH HOH . 
E 3 HOH A 67 430 430 HOH HOH . 
E 3 HOH A 68 431 431 HOH HOH . 
F 3 HOH B 1 304 304 HOH HOH . 
F 3 HOH B 2 306 306 HOH HOH . 
F 3 HOH B 3 307 307 HOH HOH . 
F 3 HOH B 4 309 309 HOH HOH . 
F 3 HOH B 5 310 310 HOH HOH . 
F 3 HOH B 6 314 314 HOH HOH . 
F 3 HOH B 7 315 315 HOH HOH . 
F 3 HOH B 8 317 317 HOH HOH . 
F 3 HOH B 9 319 319 HOH HOH . 
F 3 HOH B 10 320 320 HOH HOH . 
F 3 HOH B 11 322 322 HOH HOH . 
F 3 HOH B 12 324 324 HOH HOH . 
F 3 HOH B 13 325 325 HOH HOH . 
F 3 HOH B 14 327 327 HOH HOH . 
F 3 HOH B 15 328 328 HOH HOH . 
F 3 HOH B 16 329 329 HOH HOH . 
F 3 HOH B 17 330 330 HOH HOH . 
F 3 HOH B 18 332 332 HOH HOH . 
F 3 HOH B 19 337 337 HOH HOH . 
F 3 HOH B 20 338 338 HOH HOH . 
F 3 HOH B 21 340 340 HOH HOH . 
F 3 HOH B 22 343 343 HOH HOH . 
F 3 HOH B 23 347 347 HOH HOH . 
F 3 HOH B 24 351 351 HOH HOH . 
F 3 HOH B 25 353 353 HOH HOH . 
F 3 HOH B 26 354 354 HOH HOH . 
F 3 HOH B 27 357 357 HOH HOH . 
F 3 HOH B 28 360 360 HOH HOH . 
F 3 HOH B 29 361 361 HOH HOH . 
F 3 HOH B 30 364 364 HOH HOH . 
F 3 HOH B 31 365 365 HOH HOH . 
F 3 HOH B 32 366 366 HOH HOH . 
F 3 HOH B 33 367 367 HOH HOH . 
F 3 HOH B 34 375 375 HOH HOH . 
F 3 HOH B 35 376 376 HOH HOH . 
F 3 HOH B 36 378 378 HOH HOH . 
F 3 HOH B 37 379 379 HOH HOH . 
F 3 HOH B 38 381 381 HOH HOH . 
F 3 HOH B 39 382 382 HOH HOH . 
F 3 HOH B 40 383 383 HOH HOH . 
F 3 HOH B 41 385 385 HOH HOH . 
F 3 HOH B 42 386 386 HOH HOH . 
F 3 HOH B 43 387 387 HOH HOH . 
F 3 HOH B 44 398 398 HOH HOH . 
F 3 HOH B 45 399 399 HOH HOH . 
F 3 HOH B 46 400 400 HOH HOH . 
F 3 HOH B 47 401 401 HOH HOH . 
F 3 HOH B 48 402 402 HOH HOH . 
F 3 HOH B 49 403 403 HOH HOH . 
F 3 HOH B 50 404 404 HOH HOH . 
F 3 HOH B 51 405 405 HOH HOH . 
F 3 HOH B 52 409 409 HOH HOH . 
F 3 HOH B 53 417 417 HOH HOH . 
F 3 HOH B 54 418 418 HOH HOH . 
F 3 HOH B 55 422 422 HOH HOH . 
F 3 HOH B 56 423 423 HOH HOH . 
F 3 HOH B 57 424 424 HOH HOH . 
F 3 HOH B 58 425 425 HOH HOH . 
F 3 HOH B 59 426 426 HOH HOH . 
F 3 HOH B 60 427 427 HOH HOH . 
F 3 HOH B 61 428 428 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 MPD . . . C 2 26.841 6.23 30.81 1 66.76 ? C1 MPD 300 A 1 
HETATM 2 C C2 MPD . . . C 2 25.825 5.343 30.111 1 66.49 ? C2 MPD 300 A 1 
HETATM 3 O O2 MPD . . . C 2 26.473 4.076 29.827 1 74.28 ? O2 MPD 300 A 1 
HETATM 4 C CM MPD . . . C 2 25.442 6.014 28.803 1 68.26 ? CM MPD 300 A 1 
HETATM 5 C C3 MPD . . . C 2 24.605 5.077 30.988 1 67.38 ? C3 MPD 300 A 1 
HETATM 6 C C4 MPD . . . C 2 23.842 3.832 30.55 1 66.55 ? C4 MPD 300 A 1 
HETATM 7 O O4 MPD . . . C 2 23.043 4.197 29.453 1 72 ? O4 MPD 300 A 1 
HETATM 8 C C5 MPD . . . C 2 22.966 3.245 31.651 1 65.53 ? C5 MPD 300 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           329 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           8 
#