data_4Z04
#
_model_server_result.job_id            R699NdoddAm1Ztq-5Y247w 
_model_server_result.datetime_utc      '2025-01-05 03:09:37' 
_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          4z04 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":203}' 
#
_entry.id    4Z04 
#
_exptl.entry_id    4Z04 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.174 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (4S)-2-METHYL-2,4-PENTANEDIOL 
_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          116.29 
_cell.angle_gamma         90 
_cell.entry_id            4Z04 
_cell.length_a            82.63 
_cell.length_b            39.5 
_cell.length_c            41.7 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4Z04 
_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               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -18.469544 0 37.386708 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             E 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
metalc ? metalc1 A NE2 HIS 12 A HIS 4 1_555 C ZN ZN . A ZN 201 2_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? 
metalc ? metalc2 A NE2 HIS 71 A HIS 63 1_555 C ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
metalc ? metalc3 A OE2 GLU 124 A GLU 116 1_555 C ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.993 ? 
metalc ? metalc4 B SG2 GSH . A GSH 200 1_555 C ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? 
#
_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 273 n n 
C1 H11 MPD sing 274 n n 
C1 H12 MPD sing 275 n n 
C1 H13 MPD sing 276 n n 
C2 O2 MPD sing 277 n n 
C2 CM MPD sing 278 n n 
C2 C3 MPD sing 279 n n 
O2 HO2 MPD sing 280 n n 
CM HM1 MPD sing 281 n n 
CM HM2 MPD sing 282 n n 
CM HM3 MPD sing 283 n n 
C3 C4 MPD sing 284 n n 
C3 H31 MPD sing 285 n n 
C3 H32 MPD sing 286 n n 
C4 O4 MPD sing 287 n n 
C4 C5 MPD sing 288 n n 
C4 H4 MPD sing 289 n n 
O4 HO4 MPD sing 290 n n 
C5 H51 MPD sing 291 n n 
C5 H52 MPD sing 292 n n 
C5 H53 MPD sing 293 n n 
#
_atom_sites.entry_id                     4Z04 
_atom_sites.fract_transf_matrix[1][1]    0.012102 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.005978 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.025316 
_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]    0.026747 
_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 GSH A 1 200 200 GSH GSH . 
C 3 ZN A 1 201 201 ZN ZN . 
D 4 MRD A 1 202 202 MRD MRD . 
E 5 MPD A 1 203 203 MPD MPD . 
F 6 HOH A 1 301 113 HOH HOH . 
F 6 HOH A 2 302 73 HOH HOH . 
F 6 HOH A 3 303 39 HOH HOH . 
F 6 HOH A 4 304 30 HOH HOH . 
F 6 HOH A 5 305 58 HOH HOH . 
F 6 HOH A 6 306 37 HOH HOH . 
F 6 HOH A 7 307 62 HOH HOH . 
F 6 HOH A 8 308 20 HOH HOH . 
F 6 HOH A 9 309 50 HOH HOH . 
F 6 HOH A 10 310 14 HOH HOH . 
F 6 HOH A 11 311 54 HOH HOH . 
F 6 HOH A 12 312 71 HOH HOH . 
F 6 HOH A 13 313 33 HOH HOH . 
F 6 HOH A 14 314 15 HOH HOH . 
F 6 HOH A 15 315 43 HOH HOH . 
F 6 HOH A 16 316 21 HOH HOH . 
F 6 HOH A 17 317 7 HOH HOH . 
F 6 HOH A 18 318 24 HOH HOH . 
F 6 HOH A 19 319 59 HOH HOH . 
F 6 HOH A 20 320 1 HOH HOH . 
F 6 HOH A 21 321 114 HOH HOH . 
F 6 HOH A 22 322 10 HOH HOH . 
F 6 HOH A 23 323 2 HOH HOH . 
F 6 HOH A 24 324 11 HOH HOH . 
F 6 HOH A 25 325 111 HOH HOH . 
F 6 HOH A 26 326 82 HOH HOH . 
F 6 HOH A 27 327 88 HOH HOH . 
F 6 HOH A 28 328 26 HOH HOH . 
F 6 HOH A 29 329 17 HOH HOH . 
F 6 HOH A 30 330 4 HOH HOH . 
F 6 HOH A 31 331 103 HOH HOH . 
F 6 HOH A 32 332 64 HOH HOH . 
F 6 HOH A 33 333 42 HOH HOH . 
F 6 HOH A 34 334 25 HOH HOH . 
F 6 HOH A 35 335 3 HOH HOH . 
F 6 HOH A 36 336 128 HOH HOH . 
F 6 HOH A 37 337 19 HOH HOH . 
F 6 HOH A 38 338 90 HOH HOH . 
F 6 HOH A 39 339 5 HOH HOH . 
F 6 HOH A 40 340 31 HOH HOH . 
F 6 HOH A 41 341 60 HOH HOH . 
F 6 HOH A 42 342 72 HOH HOH . 
F 6 HOH A 43 343 56 HOH HOH . 
F 6 HOH A 44 344 44 HOH HOH . 
F 6 HOH A 45 345 28 HOH HOH . 
F 6 HOH A 46 346 53 HOH HOH . 
F 6 HOH A 47 347 29 HOH HOH . 
F 6 HOH A 48 348 84 HOH HOH . 
F 6 HOH A 49 349 34 HOH HOH . 
F 6 HOH A 50 350 70 HOH HOH . 
F 6 HOH A 51 351 57 HOH HOH . 
F 6 HOH A 52 352 18 HOH HOH . 
F 6 HOH A 53 353 66 HOH HOH . 
F 6 HOH A 54 354 87 HOH HOH . 
F 6 HOH A 55 355 83 HOH HOH . 
F 6 HOH A 56 356 16 HOH HOH . 
F 6 HOH A 57 357 32 HOH HOH . 
F 6 HOH A 58 358 49 HOH HOH . 
F 6 HOH A 59 359 6 HOH HOH . 
F 6 HOH A 60 360 35 HOH HOH . 
F 6 HOH A 61 361 55 HOH HOH . 
F 6 HOH A 62 362 13 HOH HOH . 
F 6 HOH A 63 363 104 HOH HOH . 
F 6 HOH A 64 364 61 HOH HOH . 
F 6 HOH A 65 365 101 HOH HOH . 
F 6 HOH A 66 366 22 HOH HOH . 
F 6 HOH A 67 367 124 HOH HOH . 
F 6 HOH A 68 368 67 HOH HOH . 
F 6 HOH A 69 369 122 HOH HOH . 
F 6 HOH A 70 370 98 HOH HOH . 
F 6 HOH A 71 371 100 HOH HOH . 
F 6 HOH A 72 372 9 HOH HOH . 
F 6 HOH A 73 373 41 HOH HOH . 
F 6 HOH A 74 374 46 HOH HOH . 
F 6 HOH A 75 375 36 HOH HOH . 
F 6 HOH A 76 376 40 HOH HOH . 
F 6 HOH A 77 377 63 HOH HOH . 
F 6 HOH A 78 378 65 HOH HOH . 
F 6 HOH A 79 379 45 HOH HOH . 
F 6 HOH A 80 380 105 HOH HOH . 
F 6 HOH A 81 381 78 HOH HOH . 
F 6 HOH A 82 382 109 HOH HOH . 
F 6 HOH A 83 383 91 HOH HOH . 
F 6 HOH A 84 384 38 HOH HOH . 
F 6 HOH A 85 385 116 HOH HOH . 
F 6 HOH A 86 386 112 HOH HOH . 
F 6 HOH A 87 387 81 HOH HOH . 
F 6 HOH A 88 388 92 HOH HOH . 
F 6 HOH A 89 389 74 HOH HOH . 
F 6 HOH A 90 390 127 HOH HOH . 
F 6 HOH A 91 391 51 HOH HOH . 
F 6 HOH A 92 392 118 HOH HOH . 
F 6 HOH A 93 393 94 HOH HOH . 
F 6 HOH A 94 394 8 HOH HOH . 
F 6 HOH A 95 395 48 HOH HOH . 
F 6 HOH A 96 396 80 HOH HOH . 
F 6 HOH A 97 397 12 HOH HOH . 
F 6 HOH A 98 398 129 HOH HOH . 
F 6 HOH A 99 399 95 HOH HOH . 
F 6 HOH A 100 400 47 HOH HOH . 
F 6 HOH A 101 401 75 HOH HOH . 
F 6 HOH A 102 402 68 HOH HOH . 
F 6 HOH A 103 403 110 HOH HOH . 
F 6 HOH A 104 404 85 HOH HOH . 
F 6 HOH A 105 405 123 HOH HOH . 
F 6 HOH A 106 406 125 HOH HOH . 
F 6 HOH A 107 407 99 HOH HOH . 
F 6 HOH A 108 408 27 HOH HOH . 
F 6 HOH A 109 409 107 HOH HOH . 
F 6 HOH A 110 410 52 HOH HOH . 
F 6 HOH A 111 411 121 HOH HOH . 
F 6 HOH A 112 412 23 HOH HOH . 
F 6 HOH A 113 413 119 HOH HOH . 
F 6 HOH A 114 414 77 HOH HOH . 
F 6 HOH A 115 415 69 HOH HOH . 
F 6 HOH A 116 416 102 HOH HOH . 
F 6 HOH A 117 417 93 HOH HOH . 
F 6 HOH A 118 418 130 HOH HOH . 
F 6 HOH A 119 419 108 HOH HOH . 
F 6 HOH A 120 420 76 HOH HOH . 
F 6 HOH A 121 421 96 HOH HOH . 
F 6 HOH A 122 422 126 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 . . . E 5 -21.381 -30.376 17.116 0.86 29.49 ? C1 MPD 203 A 1 
HETATM 2 C C2 MPD . . . E 5 -22.37 -29.209 17.008 0.86 27.94 ? C2 MPD 203 A 1 
HETATM 3 O O2 MPD . . . E 5 -21.738 -28.218 16.255 0.86 31.35 ? O2 MPD 203 A 1 
HETATM 4 C CM MPD . . . E 5 -23.659 -29.693 16.333 0.86 29.47 ? CM MPD 203 A 1 
HETATM 5 C C3 MPD . . . E 5 -22.726 -28.732 18.432 0.86 28.34 ? C3 MPD 203 A 1 
HETATM 6 C C4 MPD . . . E 5 -21.501 -28.086 19.103 0.86 30.44 ? C4 MPD 203 A 1 
HETATM 7 O O4 MPD . . . E 5 -21.231 -26.806 18.623 0.86 26.76 ? O4 MPD 203 A 1 
HETATM 8 C C5 MPD . . . E 5 -21.716 -28.092 20.623 0.86 34.09 ? C5 MPD 203 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           298 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           8 
#