data_5WYB # _model_server_result.job_id MOpU2I2R9Mzxy0KKgoUj_A _model_server_result.datetime_utc '2024-11-15 00:32:09' _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 5wyb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 5WYB # _exptl.entry_id 5WYB _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 (4R)-2-METHYLPENTANE-2,4-DIOL _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 120 _cell.entry_id 5WYB _cell.length_a 125.262 _cell.length_b 125.262 _cell.length_c 72.651 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WYB _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 63 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6 # 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_775 -y+2,x-y+2,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 125.262 216.960148 0 3 'crystal symmetry operation' 3_575 -x+y,-x+2,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -125.262 216.960148 0 4 'crystal symmetry operation' 10_776 -y+2,-x+2,-z+3/2 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 125.262 216.960148 108.9765 5 'crystal symmetry operation' 11_556 -x+y,y,-z+3/2 -1 0 0 0 1 0 0 0 -1 0 0 108.9765 6 'crystal symmetry operation' 12_576 x,x-y+2,-z+3/2 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -125.262 216.960148 108.9765 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MRD _chem_comp.mon_nstd_flag . _chem_comp.name (4R)-2-METHYLPENTANE-2,4-DIOL _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 MRD sing 243 n n C1 H1C1 MRD sing 244 n n C1 H1C2 MRD sing 245 n n C1 H1C3 MRD sing 246 n n C2 O2 MRD sing 247 n n C2 CM MRD sing 248 n n C2 C3 MRD sing 249 n n O2 H2 MRD sing 250 n n CM HMC1 MRD sing 251 n n CM HMC2 MRD sing 252 n n CM HMC3 MRD sing 253 n n C3 C4 MRD sing 254 n n C3 H3C1 MRD sing 255 n n C3 H3C2 MRD sing 256 n n C4 O4 MRD sing 257 n n C4 C5 MRD sing 258 n n C4 H4 MRD sing 259 n n O4 HA MRD sing 260 n n C5 H5C1 MRD sing 261 n n C5 H5C2 MRD sing 262 n n C5 H5C3 MRD sing 263 n n # _atom_sites.entry_id 5WYB _atom_sites.fract_transf_matrix[1][1] 0.007983 _atom_sites.fract_transf_matrix[1][2] 0.004609 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009218 _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] 0.013764 _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 MRD B 1 301 1 MRD MPD . C 3 ACT B 1 302 1 ACT ACT . D 4 HOH B 1 401 18 HOH HOH . D 4 HOH B 2 402 24 HOH HOH . D 4 HOH B 3 403 14 HOH HOH . D 4 HOH B 4 404 22 HOH HOH . D 4 HOH B 5 405 7 HOH HOH . D 4 HOH B 6 406 9 HOH HOH . D 4 HOH B 7 407 81 HOH HOH . D 4 HOH B 8 408 8 HOH HOH . D 4 HOH B 9 409 61 HOH HOH . D 4 HOH B 10 410 11 HOH HOH . D 4 HOH B 11 411 42 HOH HOH . D 4 HOH B 12 412 23 HOH HOH . D 4 HOH B 13 413 43 HOH HOH . D 4 HOH B 14 414 1 HOH HOH . D 4 HOH B 15 415 44 HOH HOH . D 4 HOH B 16 416 39 HOH HOH . D 4 HOH B 17 417 4 HOH HOH . D 4 HOH B 18 418 17 HOH HOH . D 4 HOH B 19 419 53 HOH HOH . D 4 HOH B 20 420 54 HOH HOH . D 4 HOH B 21 421 20 HOH HOH . D 4 HOH B 22 422 5 HOH HOH . D 4 HOH B 23 423 62 HOH HOH . D 4 HOH B 24 424 67 HOH HOH . D 4 HOH B 25 425 63 HOH HOH . D 4 HOH B 26 426 12 HOH HOH . D 4 HOH B 27 427 26 HOH HOH . D 4 HOH B 28 428 28 HOH HOH . D 4 HOH B 29 429 13 HOH HOH . D 4 HOH B 30 430 72 HOH HOH . D 4 HOH B 31 431 47 HOH HOH . D 4 HOH B 32 432 82 HOH HOH . D 4 HOH B 33 433 64 HOH HOH . D 4 HOH B 34 434 70 HOH HOH . D 4 HOH B 35 435 25 HOH HOH . D 4 HOH B 36 436 48 HOH HOH . D 4 HOH B 37 437 15 HOH HOH . D 4 HOH B 38 438 40 HOH HOH . D 4 HOH B 39 439 65 HOH HOH . D 4 HOH B 40 440 6 HOH HOH . D 4 HOH B 41 441 85 HOH HOH . D 4 HOH B 42 442 60 HOH HOH . D 4 HOH B 43 443 27 HOH HOH . D 4 HOH B 44 444 16 HOH HOH . D 4 HOH B 45 445 52 HOH HOH . D 4 HOH B 46 446 97 HOH HOH . D 4 HOH B 47 447 29 HOH HOH . D 4 HOH B 48 448 87 HOH HOH . D 4 HOH B 49 449 80 HOH HOH . D 4 HOH B 50 450 35 HOH HOH . D 4 HOH B 51 451 19 HOH HOH . D 4 HOH B 52 452 77 HOH HOH . D 4 HOH B 53 453 51 HOH HOH . D 4 HOH B 54 454 34 HOH HOH . D 4 HOH B 55 455 59 HOH HOH . D 4 HOH B 56 456 94 HOH HOH . D 4 HOH B 57 457 45 HOH HOH . D 4 HOH B 58 458 31 HOH HOH . D 4 HOH B 59 459 36 HOH HOH . D 4 HOH B 60 460 46 HOH HOH . D 4 HOH B 61 461 21 HOH HOH . D 4 HOH B 62 462 41 HOH HOH . D 4 HOH B 63 463 96 HOH HOH . D 4 HOH B 64 464 30 HOH HOH . D 4 HOH B 65 465 55 HOH HOH . D 4 HOH B 66 466 49 HOH HOH . D 4 HOH B 67 467 90 HOH HOH . D 4 HOH B 68 468 10 HOH HOH . D 4 HOH B 69 469 84 HOH HOH . D 4 HOH B 70 470 88 HOH HOH . D 4 HOH B 71 471 58 HOH HOH . D 4 HOH B 72 472 32 HOH HOH . D 4 HOH B 73 473 33 HOH HOH . D 4 HOH B 74 474 38 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 MRD . . . B 2 19.601 154.996 70.912 1 62.38 ? C1 MRD 301 B 1 HETATM 2 C C2 MRD . . . B 2 20.575 154.995 69.767 1 61.37 ? C2 MRD 301 B 1 HETATM 3 O O2 MRD . . . B 2 20.048 154.116 68.753 1 60.29 ? O2 MRD 301 B 1 HETATM 4 C CM MRD . . . B 2 21.836 154.358 70.296 1 63.12 ? CM MRD 301 B 1 HETATM 5 C C3 MRD . . . B 2 20.731 156.399 69.171 1 56.43 ? C3 MRD 301 B 1 HETATM 6 C C4 MRD . . . B 2 22.105 157.049 68.911 1 41.88 ? C4 MRD 301 B 1 HETATM 7 O O4 MRD . . . B 2 23.098 156.863 69.894 1 50.9 ? O4 MRD 301 B 1 HETATM 8 C C5 MRD . . . B 2 21.961 158.568 68.839 1 47.38 ? C5 MRD 301 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 287 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 8 #