data_5D25 # _model_server_result.job_id BEgvHkbWVpG5IszM2lT2jw _model_server_result.datetime_utc '2024-11-05 01:27:25' _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 5d25 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 5D25 # _exptl.entry_id 5D25 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 90.121 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (R,R)-2,3-BUTANEDIOL _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 5D25 _cell.length_a 39.36 _cell.length_b 49.81 _cell.length_c 58.05 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5D25 _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C4 H10 O2' _chem_comp.formula_weight 90.121 _chem_comp.id BU3 _chem_comp.mon_nstd_flag . _chem_comp.name (R,R)-2,3-BUTANEDIOL _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 O6 C3 BU3 sing 124 n n O6 HO6 BU3 sing 125 n n C3 C4 BU3 sing 126 n n C3 C2 BU3 sing 127 n n C3 H3 BU3 sing 128 n n C4 H41 BU3 sing 129 n n C4 H42 BU3 sing 130 n n C4 H43 BU3 sing 131 n n C2 O5 BU3 sing 132 n n C2 C1 BU3 sing 133 n n C2 H2 BU3 sing 134 n n O5 HO5 BU3 sing 135 n n C1 H11 BU3 sing 136 n n C1 H12 BU3 sing 137 n n C1 H13 BU3 sing 138 n n # _atom_sites.entry_id 5D25 _atom_sites.fract_transf_matrix[1][1] 0.025407 _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] 0.020076 _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] 0.017227 _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 56M A 1 201 1 56M L27 . C 3 GOL A 1 202 1 GOL GOL . D 4 BU3 A 1 203 2 BU3 BU3 . E 5 HOH A 1 301 61 HOH HOH . E 5 HOH A 2 302 102 HOH HOH . E 5 HOH A 3 303 37 HOH HOH . E 5 HOH A 4 304 103 HOH HOH . E 5 HOH A 5 305 27 HOH HOH . E 5 HOH A 6 306 73 HOH HOH . E 5 HOH A 7 307 46 HOH HOH . E 5 HOH A 8 308 36 HOH HOH . E 5 HOH A 9 309 84 HOH HOH . E 5 HOH A 10 310 76 HOH HOH . E 5 HOH A 11 311 56 HOH HOH . E 5 HOH A 12 312 24 HOH HOH . E 5 HOH A 13 313 39 HOH HOH . E 5 HOH A 14 314 96 HOH HOH . E 5 HOH A 15 315 40 HOH HOH . E 5 HOH A 16 316 72 HOH HOH . E 5 HOH A 17 317 22 HOH HOH . E 5 HOH A 18 318 99 HOH HOH . E 5 HOH A 19 319 5 HOH HOH . E 5 HOH A 20 320 48 HOH HOH . E 5 HOH A 21 321 13 HOH HOH . E 5 HOH A 22 322 8 HOH HOH . E 5 HOH A 23 323 67 HOH HOH . E 5 HOH A 24 324 11 HOH HOH . E 5 HOH A 25 325 89 HOH HOH . E 5 HOH A 26 326 20 HOH HOH . E 5 HOH A 27 327 30 HOH HOH . E 5 HOH A 28 328 21 HOH HOH . E 5 HOH A 29 329 16 HOH HOH . E 5 HOH A 30 330 85 HOH HOH . E 5 HOH A 31 331 38 HOH HOH . E 5 HOH A 32 332 28 HOH HOH . E 5 HOH A 33 333 62 HOH HOH . E 5 HOH A 34 334 2 HOH HOH . E 5 HOH A 35 335 44 HOH HOH . E 5 HOH A 36 336 34 HOH HOH . E 5 HOH A 37 337 77 HOH HOH . E 5 HOH A 38 338 88 HOH HOH . E 5 HOH A 39 339 25 HOH HOH . E 5 HOH A 40 340 35 HOH HOH . E 5 HOH A 41 341 12 HOH HOH . E 5 HOH A 42 342 57 HOH HOH . E 5 HOH A 43 343 4 HOH HOH . E 5 HOH A 44 344 42 HOH HOH . E 5 HOH A 45 345 52 HOH HOH . E 5 HOH A 46 346 9 HOH HOH . E 5 HOH A 47 347 70 HOH HOH . E 5 HOH A 48 348 87 HOH HOH . E 5 HOH A 49 349 1 HOH HOH . E 5 HOH A 50 350 59 HOH HOH . E 5 HOH A 51 351 51 HOH HOH . E 5 HOH A 52 352 53 HOH HOH . E 5 HOH A 53 353 47 HOH HOH . E 5 HOH A 54 354 17 HOH HOH . E 5 HOH A 55 355 65 HOH HOH . E 5 HOH A 56 356 64 HOH HOH . E 5 HOH A 57 357 45 HOH HOH . E 5 HOH A 58 358 75 HOH HOH . E 5 HOH A 59 359 98 HOH HOH . E 5 HOH A 60 360 10 HOH HOH . E 5 HOH A 61 361 79 HOH HOH . E 5 HOH A 62 362 81 HOH HOH . E 5 HOH A 63 363 3 HOH HOH . E 5 HOH A 64 364 49 HOH HOH . E 5 HOH A 65 365 29 HOH HOH . E 5 HOH A 66 366 18 HOH HOH . E 5 HOH A 67 367 92 HOH HOH . E 5 HOH A 68 368 33 HOH HOH . E 5 HOH A 69 369 23 HOH HOH . E 5 HOH A 70 370 71 HOH HOH . E 5 HOH A 71 371 58 HOH HOH . E 5 HOH A 72 372 6 HOH HOH . E 5 HOH A 73 373 32 HOH HOH . E 5 HOH A 74 374 86 HOH HOH . E 5 HOH A 75 375 60 HOH HOH . E 5 HOH A 76 376 66 HOH HOH . E 5 HOH A 77 377 7 HOH HOH . E 5 HOH A 78 378 43 HOH HOH . E 5 HOH A 79 379 31 HOH HOH . E 5 HOH A 80 380 50 HOH HOH . E 5 HOH A 81 381 95 HOH HOH . E 5 HOH A 82 382 101 HOH HOH . E 5 HOH A 83 383 26 HOH HOH . E 5 HOH A 84 384 93 HOH HOH . E 5 HOH A 85 385 55 HOH HOH . E 5 HOH A 86 386 100 HOH HOH . E 5 HOH A 87 387 80 HOH HOH . E 5 HOH A 88 388 19 HOH HOH . E 5 HOH A 89 389 83 HOH HOH . E 5 HOH A 90 390 74 HOH HOH . E 5 HOH A 91 391 63 HOH HOH . E 5 HOH A 92 392 78 HOH HOH . E 5 HOH A 93 393 54 HOH HOH . E 5 HOH A 94 394 97 HOH HOH . E 5 HOH A 95 395 94 HOH HOH . E 5 HOH A 96 396 41 HOH HOH . E 5 HOH A 97 397 14 HOH HOH . E 5 HOH A 98 398 15 HOH HOH . E 5 HOH A 99 399 82 HOH HOH . E 5 HOH A 100 400 68 HOH HOH . E 5 HOH A 101 401 69 HOH HOH . E 5 HOH A 102 402 90 HOH HOH . E 5 HOH A 103 403 91 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 O O6 BU3 . . . D 4 20.213 46.914 -0.559 1 26.99 ? O6 BU3 203 A 1 HETATM 2 C C3 BU3 . . . D 4 18.789 46.699 -0.515 1 25.89 ? C3 BU3 203 A 1 HETATM 3 C C4 BU3 . . . D 4 18.201 46.942 -1.902 1 26.1 ? C4 BU3 203 A 1 HETATM 4 C C2 BU3 . . . D 4 18.187 47.635 0.53 1 25.31 ? C2 BU3 203 A 1 HETATM 5 O O5 BU3 . . . D 4 18.92 47.498 1.767 1 25.52 ? O5 BU3 203 A 1 HETATM 6 C C1 BU3 . . . D 4 16.702 47.362 0.768 1 24.19 ? C1 BU3 203 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #