data_5VL8 # _model_server_result.job_id M9DIKAw7iALuad0yCZA_3A _model_server_result.datetime_utc '2024-10-11 16:29:08' _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 5vl8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 5VL8 # _exptl.entry_id 5VL8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 5VL8 _cell.length_a 57.58 _cell.length_b 57.58 _cell.length_c 183.57 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VL8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 1,2,3,4 # 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' 8_665 -y+1,-x+1,-z 0 -1 0 -1 0 0 0 0 -1 57.58 57.58 0 3 'crystal symmetry operation' 10_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 57.58 57.58 0 4 'crystal symmetry operation' 15_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 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 # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NE2 _struct_conn.ptnr1_label_comp_id HIS _struct_conn.ptnr1_label_seq_id 87 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id HIS _struct_conn.ptnr1_auth_seq_id 87 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id C _struct_conn.ptnr2_label_atom_id CU _struct_conn.ptnr2_label_comp_id CU _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CU _struct_conn.ptnr2_auth_seq_id 202 _struct_conn.ptnr2_symmetry 1_555 _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 2.576 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 GOL sing 116 n n C1 C2 GOL sing 117 n n C1 H11 GOL sing 118 n n C1 H12 GOL sing 119 n n O1 HO1 GOL sing 120 n n C2 O2 GOL sing 121 n n C2 C3 GOL sing 122 n n C2 H2 GOL sing 123 n n O2 HO2 GOL sing 124 n n C3 O3 GOL sing 125 n n C3 H31 GOL sing 126 n n C3 H32 GOL sing 127 n n O3 HO3 GOL sing 128 n n # _atom_sites.entry_id 5VL8 _atom_sites.fract_transf_matrix[1][1] 0.017367 _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] 0.017367 _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] 0.005448 _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 S32 A 1 201 1 S32 S32 . C 3 CU A 1 202 1 CU CU . D 4 GOL A 1 203 2 GOL GOL . E 5 HOH A 1 301 48 HOH HOH . E 5 HOH A 2 302 24 HOH HOH . E 5 HOH A 3 303 123 HOH HOH . E 5 HOH A 4 304 105 HOH HOH . E 5 HOH A 5 305 56 HOH HOH . E 5 HOH A 6 306 35 HOH HOH . E 5 HOH A 7 307 1 HOH HOH . E 5 HOH A 8 308 89 HOH HOH . E 5 HOH A 9 309 142 HOH HOH . E 5 HOH A 10 310 8 HOH HOH . E 5 HOH A 11 311 23 HOH HOH . E 5 HOH A 12 312 47 HOH HOH . E 5 HOH A 13 313 26 HOH HOH . E 5 HOH A 14 314 4 HOH HOH . E 5 HOH A 15 315 29 HOH HOH . E 5 HOH A 16 316 80 HOH HOH . E 5 HOH A 17 317 18 HOH HOH . E 5 HOH A 18 318 44 HOH HOH . E 5 HOH A 19 319 71 HOH HOH . E 5 HOH A 20 320 7 HOH HOH . E 5 HOH A 21 321 12 HOH HOH . E 5 HOH A 22 322 128 HOH HOH . E 5 HOH A 23 323 11 HOH HOH . E 5 HOH A 24 324 2 HOH HOH . E 5 HOH A 25 325 15 HOH HOH . E 5 HOH A 26 326 17 HOH HOH . E 5 HOH A 27 327 110 HOH HOH . E 5 HOH A 28 328 46 HOH HOH . E 5 HOH A 29 329 106 HOH HOH . E 5 HOH A 30 330 75 HOH HOH . E 5 HOH A 31 331 25 HOH HOH . E 5 HOH A 32 332 3 HOH HOH . E 5 HOH A 33 333 14 HOH HOH . E 5 HOH A 34 334 10 HOH HOH . E 5 HOH A 35 335 138 HOH HOH . E 5 HOH A 36 336 22 HOH HOH . E 5 HOH A 37 337 67 HOH HOH . E 5 HOH A 38 338 5 HOH HOH . E 5 HOH A 39 339 57 HOH HOH . E 5 HOH A 40 340 33 HOH HOH . E 5 HOH A 41 341 21 HOH HOH . E 5 HOH A 42 342 19 HOH HOH . E 5 HOH A 43 343 31 HOH HOH . E 5 HOH A 44 344 140 HOH HOH . E 5 HOH A 45 345 27 HOH HOH . E 5 HOH A 46 346 59 HOH HOH . E 5 HOH A 47 347 144 HOH HOH . E 5 HOH A 48 348 76 HOH HOH . E 5 HOH A 49 349 37 HOH HOH . E 5 HOH A 50 350 143 HOH HOH . E 5 HOH A 51 351 63 HOH HOH . E 5 HOH A 52 352 69 HOH HOH . E 5 HOH A 53 353 73 HOH HOH . E 5 HOH A 54 354 34 HOH HOH . E 5 HOH A 55 355 6 HOH HOH . E 5 HOH A 56 356 62 HOH HOH . E 5 HOH A 57 357 70 HOH HOH . E 5 HOH A 58 358 13 HOH HOH . E 5 HOH A 59 359 115 HOH HOH . E 5 HOH A 60 360 139 HOH HOH . E 5 HOH A 61 361 50 HOH HOH . E 5 HOH A 62 362 60 HOH HOH . E 5 HOH A 63 363 66 HOH HOH . E 5 HOH A 64 364 30 HOH HOH . E 5 HOH A 65 365 36 HOH HOH . E 5 HOH A 66 366 20 HOH HOH . E 5 HOH A 67 367 16 HOH HOH . E 5 HOH A 68 368 9 HOH HOH . E 5 HOH A 69 369 38 HOH HOH . E 5 HOH A 70 370 88 HOH HOH . E 5 HOH A 71 371 42 HOH HOH . E 5 HOH A 72 372 135 HOH HOH . E 5 HOH A 73 373 141 HOH HOH . E 5 HOH A 74 374 65 HOH HOH . E 5 HOH A 75 375 43 HOH HOH . E 5 HOH A 76 376 32 HOH HOH . E 5 HOH A 77 377 54 HOH HOH . E 5 HOH A 78 378 49 HOH HOH . E 5 HOH A 79 379 72 HOH HOH . E 5 HOH A 80 380 136 HOH HOH . E 5 HOH A 81 381 53 HOH HOH . E 5 HOH A 82 382 79 HOH HOH . E 5 HOH A 83 383 137 HOH HOH . E 5 HOH A 84 384 92 HOH HOH . E 5 HOH A 85 385 96 HOH HOH . E 5 HOH A 86 386 134 HOH HOH . E 5 HOH A 87 387 101 HOH HOH . E 5 HOH A 88 388 51 HOH HOH . E 5 HOH A 89 389 83 HOH HOH . E 5 HOH A 90 390 124 HOH HOH . E 5 HOH A 91 391 107 HOH HOH . E 5 HOH A 92 392 58 HOH HOH . E 5 HOH A 93 393 122 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 GOL . . . D 4 17.039 31.711 -18.893 1 57.53 ? C1 GOL 203 A 1 HETATM 2 O O1 GOL . . . D 4 16.615 32.284 -17.633 1 44.57 ? O1 GOL 203 A 1 HETATM 3 C C2 GOL . . . D 4 18.567 31.608 -18.813 1 57.15 ? C2 GOL 203 A 1 HETATM 4 O O2 GOL . . . D 4 18.861 31.807 -17.428 1 65.02 ? O2 GOL 203 A 1 HETATM 5 C C3 GOL . . . D 4 19.257 30.292 -19.123 1 51.27 ? C3 GOL 203 A 1 HETATM 6 O O3 GOL . . . D 4 20.387 30.342 -18.203 1 49.41 ? O3 GOL 203 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #