data_4YL1 # _model_server_result.job_id Jhw51mNGgu3bGnoKZtczAw _model_server_result.datetime_utc '2024-12-15 16:48:35' _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 4yl1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":205}' # _entry.id 4YL1 # _exptl.entry_id 4YL1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 292.369 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'octyl beta-D-glucopyranoside' _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 90 _cell.angle_gamma 120 _cell.entry_id 4YL1 _cell.length_a 76.585 _cell.length_b 76.585 _cell.length_c 123.617 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YL1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 1,2,3 # 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 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 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 ? 5 E N N ? 5 F N N # _chem_comp.formula 'C14 H28 O6' _chem_comp.formula_weight 292.369 _chem_comp.id BOG _chem_comp.mon_nstd_flag n _chem_comp.name 'octyl beta-D-glucopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms 'Beta-Octylglucoside;octyl beta-D-glucoside;octyl D-glucoside;octyl glucoside' # 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 BOG sing 134 n n C1 C2 BOG sing 135 n n C1 O5 BOG sing 136 n n C1 H1 BOG sing 137 n n O1 C1' BOG sing 138 n n C2 O2 BOG sing 139 n n C2 C3 BOG sing 140 n n C2 H2 BOG sing 141 n n O2 HO2 BOG sing 142 n n C3 O3 BOG sing 143 n n C3 C4 BOG sing 144 n n C3 H3 BOG sing 145 n n O3 HO3 BOG sing 146 n n C4 O4 BOG sing 147 n n C4 C5 BOG sing 148 n n C4 H4 BOG sing 149 n n O4 HO4 BOG sing 150 n n C5 O5 BOG sing 151 n n C5 C6 BOG sing 152 n n C5 H5 BOG sing 153 n n C6 O6 BOG sing 154 n n C6 H61 BOG sing 155 n n C6 H62 BOG sing 156 n n O6 HO6 BOG sing 157 n n C1' C2' BOG sing 158 n n C1' "H1'1" BOG sing 159 n n C1' "H1'2" BOG sing 160 n n C2' C3' BOG sing 161 n n C2' "H2'1" BOG sing 162 n n C2' "H2'2" BOG sing 163 n n C3' C4' BOG sing 164 n n C3' "H3'1" BOG sing 165 n n C3' "H3'2" BOG sing 166 n n C4' C5' BOG sing 167 n n C4' "H4'1" BOG sing 168 n n C4' "H4'2" BOG sing 169 n n C5' C6' BOG sing 170 n n C5' "H5'1" BOG sing 171 n n C5' "H5'2" BOG sing 172 n n C6' C7' BOG sing 173 n n C6' "H6'1" BOG sing 174 n n C6' "H6'2" BOG sing 175 n n C7' C8' BOG sing 176 n n C7' "H7'1" BOG sing 177 n n C7' "H7'2" BOG sing 178 n n C8' "H8'1" BOG sing 179 n n C8' "H8'2" BOG sing 180 n n C8' "H8'3" BOG sing 181 n n # _pdbx_chem_comp_identifier.comp_id BOG _pdbx_chem_comp_identifier.identifier b-octylglucoside _pdbx_chem_comp_identifier.type 'IUPAC CARBOHYDRATE SYMBOL' _pdbx_chem_comp_identifier.program PDB-CARE _pdbx_chem_comp_identifier.program_version 1 # _atom_sites.entry_id 4YL1 _atom_sites.fract_transf_matrix[1][1] 0.013057 _atom_sites.fract_transf_matrix[1][2] 0.007539 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015077 _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] 0.00809 _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 4U8 A 1 201 1 4U8 SX1 . C 3 PEG A 1 202 1 PEG PG4 . D 4 GSH A 1 203 2 GSH GTT . E 5 BOG A 1 204 3 BOG BOG . F 5 BOG A 1 205 4 BOG BOG . G 6 PG4 A 1 206 5 PG4 PG4 . H 7 HOH A 1 301 33 HOH HOH . H 7 HOH A 2 302 109 HOH HOH . H 7 HOH A 3 303 41 HOH HOH . H 7 HOH A 4 304 14 HOH HOH . H 7 HOH A 5 305 23 HOH HOH . H 7 HOH A 6 306 62 HOH HOH . H 7 HOH A 7 307 34 HOH HOH . H 7 HOH A 8 308 95 HOH HOH . H 7 HOH A 9 309 4 HOH HOH . H 7 HOH A 10 310 59 HOH HOH . H 7 HOH A 11 311 17 HOH HOH . H 7 HOH A 12 312 5 HOH HOH . H 7 HOH A 13 313 57 HOH HOH . H 7 HOH A 14 314 29 HOH HOH . H 7 HOH A 15 315 65 HOH HOH . H 7 HOH A 16 316 48 HOH HOH . H 7 HOH A 17 317 7 HOH HOH . H 7 HOH A 18 318 56 HOH HOH . H 7 HOH A 19 319 16 HOH HOH . H 7 HOH A 20 320 22 HOH HOH . H 7 HOH A 21 321 8 HOH HOH . H 7 HOH A 22 322 30 HOH HOH . H 7 HOH A 23 323 11 HOH HOH . H 7 HOH A 24 324 31 HOH HOH . H 7 HOH A 25 325 9 HOH HOH . H 7 HOH A 26 326 93 HOH HOH . H 7 HOH A 27 327 45 HOH HOH . H 7 HOH A 28 328 26 HOH HOH . H 7 HOH A 29 329 49 HOH HOH . H 7 HOH A 30 330 10 HOH HOH . H 7 HOH A 31 331 106 HOH HOH . H 7 HOH A 32 332 6 HOH HOH . H 7 HOH A 33 333 37 HOH HOH . H 7 HOH A 34 334 52 HOH HOH . H 7 HOH A 35 335 40 HOH HOH . H 7 HOH A 36 336 35 HOH HOH . H 7 HOH A 37 337 54 HOH HOH . H 7 HOH A 38 338 39 HOH HOH . H 7 HOH A 39 339 69 HOH HOH . H 7 HOH A 40 340 32 HOH HOH . H 7 HOH A 41 341 61 HOH HOH . H 7 HOH A 42 342 21 HOH HOH . H 7 HOH A 43 343 25 HOH HOH . H 7 HOH A 44 344 74 HOH HOH . H 7 HOH A 45 345 64 HOH HOH . H 7 HOH A 46 346 58 HOH HOH . H 7 HOH A 47 347 12 HOH HOH . H 7 HOH A 48 348 19 HOH HOH . H 7 HOH A 49 349 83 HOH HOH . H 7 HOH A 50 350 53 HOH HOH . H 7 HOH A 51 351 75 HOH HOH . H 7 HOH A 52 352 67 HOH HOH . H 7 HOH A 53 353 88 HOH HOH . H 7 HOH A 54 354 77 HOH HOH . H 7 HOH A 55 355 43 HOH HOH . H 7 HOH A 56 356 117 HOH HOH . H 7 HOH A 57 357 55 HOH HOH . H 7 HOH A 58 358 20 HOH HOH . H 7 HOH A 59 359 44 HOH HOH . H 7 HOH A 60 360 72 HOH HOH . H 7 HOH A 61 361 80 HOH HOH . H 7 HOH A 62 362 18 HOH HOH . H 7 HOH A 63 363 42 HOH HOH . H 7 HOH A 64 364 76 HOH HOH . H 7 HOH A 65 365 115 HOH HOH . H 7 HOH A 66 366 47 HOH HOH . H 7 HOH A 67 367 84 HOH HOH . H 7 HOH A 68 368 89 HOH HOH . H 7 HOH A 69 369 27 HOH HOH . H 7 HOH A 70 370 13 HOH HOH . H 7 HOH A 71 371 24 HOH HOH . H 7 HOH A 72 372 68 HOH HOH . H 7 HOH A 73 373 15 HOH HOH . H 7 HOH A 74 374 51 HOH HOH . H 7 HOH A 75 375 114 HOH HOH . H 7 HOH A 76 376 96 HOH HOH . H 7 HOH A 77 377 28 HOH HOH . H 7 HOH A 78 378 79 HOH HOH . H 7 HOH A 79 379 38 HOH HOH . H 7 HOH A 80 380 107 HOH HOH . H 7 HOH A 81 381 116 HOH HOH . H 7 HOH A 82 382 112 HOH HOH . H 7 HOH A 83 383 103 HOH HOH . H 7 HOH A 84 384 101 HOH HOH . H 7 HOH A 85 385 70 HOH HOH . H 7 HOH A 86 386 98 HOH HOH . H 7 HOH A 87 387 50 HOH HOH . H 7 HOH A 88 388 81 HOH HOH . H 7 HOH A 89 389 46 HOH HOH . H 7 HOH A 90 390 71 HOH HOH . H 7 HOH A 91 391 87 HOH HOH . H 7 HOH A 92 392 99 HOH HOH . H 7 HOH A 93 393 94 HOH HOH . H 7 HOH A 94 394 3 HOH HOH . H 7 HOH A 95 395 1 HOH HOH . H 7 HOH A 96 396 60 HOH HOH . H 7 HOH A 97 397 113 HOH HOH . H 7 HOH A 98 398 91 HOH HOH . H 7 HOH A 99 399 78 HOH HOH . H 7 HOH A 100 400 86 HOH HOH . H 7 HOH A 101 401 36 HOH HOH . H 7 HOH A 102 402 108 HOH HOH . H 7 HOH A 103 403 92 HOH HOH . H 7 HOH A 104 404 102 HOH HOH . H 7 HOH A 105 405 66 HOH HOH . H 7 HOH A 106 406 105 HOH HOH . H 7 HOH A 107 407 2 HOH HOH . H 7 HOH A 108 408 111 HOH HOH . H 7 HOH A 109 409 90 HOH HOH . H 7 HOH A 110 410 63 HOH HOH . H 7 HOH A 111 411 104 HOH HOH . H 7 HOH A 112 412 85 HOH HOH . H 7 HOH A 113 413 97 HOH HOH . H 7 HOH A 114 414 82 HOH HOH . H 7 HOH A 115 415 100 HOH HOH . H 7 HOH A 116 416 73 HOH HOH . H 7 HOH A 117 417 110 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 BOG . . . F 5 23.177 -3.381 33.427 1 66.28 ? C1 BOG 205 A 1 HETATM 2 O O1 BOG . . . F 5 22.928 -3.098 32.052 1 54.95 ? O1 BOG 205 A 1 HETATM 3 C C2 BOG . . . F 5 24.603 -2.957 33.776 1 72.9 ? C2 BOG 205 A 1 HETATM 4 O O2 BOG . . . F 5 25.529 -3.792 33.073 1 76.4 ? O2 BOG 205 A 1 HETATM 5 C C3 BOG . . . F 5 24.878 -3.047 35.279 1 83.36 ? C3 BOG 205 A 1 HETATM 6 O O3 BOG . . . F 5 26.088 -2.34 35.577 1 95.13 ? O3 BOG 205 A 1 HETATM 7 C C4 BOG . . . F 5 23.743 -2.479 36.136 1 83.5 ? C4 BOG 205 A 1 HETATM 8 O O4 BOG . . . F 5 23.925 -2.904 37.492 1 77.55 ? O4 BOG 205 A 1 HETATM 9 C C5 BOG . . . F 5 22.371 -2.931 35.633 1 74.29 ? C5 BOG 205 A 1 HETATM 10 O O5 BOG . . . F 5 22.249 -2.653 34.236 1 67.98 ? O5 BOG 205 A 1 HETATM 11 C C6 BOG . . . F 5 21.239 -2.221 36.363 1 55.04 ? C6 BOG 205 A 1 HETATM 12 O O6 BOG . . . F 5 19.995 -2.631 35.786 1 29.74 ? O6 BOG 205 A 1 HETATM 13 C C1' BOG . . . F 5 21.681 -3.627 31.608 1 37.19 ? C1' BOG 205 A 1 HETATM 14 C C2' BOG . . . F 5 21.34 -3.031 30.249 1 31.61 ? C2' BOG 205 A 1 HETATM 15 C C3' BOG . . . F 5 20.31 -3.897 29.537 1 31.28 ? C3' BOG 205 A 1 HETATM 16 C C4' BOG . . . F 5 20.014 -3.355 28.146 1 29.41 ? C4' BOG 205 A 1 HETATM 17 C C5' BOG . . . F 5 19.128 -4.322 27.374 1 29.15 ? C5' BOG 205 A 1 HETATM 18 C C6' BOG . . . F 5 18.748 -3.739 26.019 1 26.89 ? C6' BOG 205 A 1 HETATM 19 C C7' BOG . . . F 5 17.72 -4.62 25.322 1 32.33 ? C7' BOG 205 A 1 HETATM 20 C C8' BOG . . . F 5 17.451 -4.125 23.918 1 37.37 ? C8' BOG 205 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 20 #