data_5VBL # _model_server_result.job_id BLsj8PP3BreRV7Iv9oY7Sg _model_server_result.datetime_utc '2025-02-26 23:23:49' _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 5vbl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1102}' # _entry.id 5VBL # _exptl.entry_id 5VBL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 356.54 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate' _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 114.87 _cell.angle_gamma 90 _cell.entry_id 5VBL _cell.length_a 150.58 _cell.length_b 44.3 _cell.length_c 79.45 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VBL _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 _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 # 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 disulf ? disulf1 B SG CYS 37 B CYS 19 1_555 B SG CYS 340 B CYS 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 B SG CYS 120 B CYS 102 1_555 B SG CYS 199 B CYS 181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A C PRO 7 A PRO 7 1_555 A N HRG 8 A HRG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? covale ? covale2 A C HRG 8 A HRG 8 1_555 A N ALC 9 A ALC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.348 ? covale ? covale3 A C ALC 9 A ALC 9 1_555 A N GLU 10 A GLU 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.354 ? covale ? covale4 A CD GLU 10 A GLU 10 1_555 A NZ LYS 13 A LYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? covale ? covale5 A C LYS 13 A LYS 13 1_555 A N OIC 14 A OIC 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.36 ? covale ? covale6 A C OIC 14 A OIC 14 1_555 A N NLE 15 A NLE 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? covale ? covale7 A C NLE 15 A NLE 15 1_555 A N PRO 16 A PRO 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.36 ? covale ? covale8 A C PRO 16 A PRO 16 1_555 A N 200 17 A 200 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.362 ? metalc ? metalc1 B SG CYS 253 B CYS 1006 1_555 C ZN ZN . B ZN 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? metalc ? metalc2 B SG CYS 256 B CYS 1009 1_555 C ZN ZN . B ZN 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc3 B SG CYS 286 B CYS 1039 1_555 C ZN ZN . B ZN 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc4 B SG CYS 289 B CYS 1042 1_555 C ZN ZN . B ZN 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? # _chem_comp.formula 'C21 H40 O4' _chem_comp.formula_weight 356.54 _chem_comp.id OLC _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 1-Oleoyl-R-glycerol # 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 C18 C17 OLC sing 366 n n C10 C9 OLC doub 367 n n C10 C11 OLC sing 368 n n C9 C8 OLC sing 369 n n C17 C16 OLC sing 370 z n C11 C12 OLC sing 371 n n C8 C7 OLC sing 372 n n C24 C22 OLC sing 373 n n C24 O25 OLC sing 374 n n C16 C15 OLC sing 375 n n C12 C13 OLC sing 376 n n C7 C6 OLC sing 377 n n C15 C14 OLC sing 378 n n C13 C14 OLC sing 379 n n C6 C5 OLC sing 380 n n C5 C4 OLC sing 381 n n C4 C3 OLC sing 382 n n C3 C2 OLC sing 383 n n C2 C1 OLC sing 384 n n C21 C22 OLC sing 385 n n C21 O20 OLC sing 386 n n C1 O19 OLC doub 387 n n C1 O20 OLC sing 388 n n C22 O23 OLC sing 389 n n C18 H18 OLC sing 390 n n C18 H18A OLC sing 391 n n C18 H18B OLC sing 392 n n C10 H10 OLC sing 393 n n C9 H9 OLC sing 394 n n C17 H17 OLC sing 395 n n C17 H17A OLC sing 396 n n C11 H11 OLC sing 397 n n C11 H11A OLC sing 398 n n C8 H8 OLC sing 399 n n C8 H8A OLC sing 400 n n C24 H24 OLC sing 401 n n C24 H24A OLC sing 402 n n C16 H16 OLC sing 403 n n C16 H16A OLC sing 404 n n C12 H12 OLC sing 405 n n C12 H12A OLC sing 406 n n C7 H7 OLC sing 407 n n C7 H7A OLC sing 408 n n C15 H15 OLC sing 409 n n C15 H15A OLC sing 410 n n C13 H13 OLC sing 411 n n C13 H13A OLC sing 412 n n C6 H6 OLC sing 413 n n C6 H6A OLC sing 414 n n C14 H14 OLC sing 415 n n C14 H14A OLC sing 416 n n C5 H5 OLC sing 417 n n C5 H5A OLC sing 418 n n C4 H4 OLC sing 419 n n C4 H4A OLC sing 420 n n C3 H3 OLC sing 421 n n C3 H3A OLC sing 422 n n C2 H2 OLC sing 423 n n C2 H2A OLC sing 424 n n C21 H21 OLC sing 425 n n C21 H21A OLC sing 426 n n C22 H22 OLC sing 427 n n O25 HO25 OLC sing 428 n n O23 HO23 OLC sing 429 n n # _atom_sites.entry_id 5VBL _atom_sites.fract_transf_matrix[1][1] 0.006641 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003078 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022573 _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] 0.013873 _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 C 3 ZN B 1 1101 1 ZN ZN . D 4 OLC B 1 1102 1 OLC OLC . E 5 HOH B 1 1201 2 HOH HOH . E 5 HOH B 2 1202 4 HOH HOH . E 5 HOH B 3 1203 5 HOH HOH . E 5 HOH B 4 1204 3 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 C8 OLC . . . D 4 172.593 -1.713 42.28 1 71.24 ? C8 OLC 1102 B 1 HETATM 2 C C24 OLC . . . D 4 182.008 -6.504 48.909 1 75.49 ? C24 OLC 1102 B 1 HETATM 3 C C7 OLC . . . D 4 172.811 -3.207 42.507 1 71.36 ? C7 OLC 1102 B 1 HETATM 4 C C6 OLC . . . D 4 174.273 -3.601 42.635 1 71.59 ? C6 OLC 1102 B 1 HETATM 5 C C5 OLC . . . D 4 174.507 -5.093 42.848 1 71.76 ? C5 OLC 1102 B 1 HETATM 6 C C4 OLC . . . D 4 175.969 -5.5 43.001 1 72.24 ? C4 OLC 1102 B 1 HETATM 7 C C3 OLC . . . D 4 176.599 -5.121 44.334 1 72.94 ? C3 OLC 1102 B 1 HETATM 8 C C2 OLC . . . D 4 178.082 -5.454 44.416 1 73.65 ? C2 OLC 1102 B 1 HETATM 9 C C21 OLC . . . D 4 180.087 -5.656 47.528 1 75.24 ? C21 OLC 1102 B 1 HETATM 10 C C1 OLC . . . D 4 178.741 -4.966 45.674 1 74.29 ? C1 OLC 1102 B 1 HETATM 11 C C22 OLC . . . D 4 181.155 -6.713 47.679 1 75.62 ? C22 OLC 1102 B 1 HETATM 12 O O19 OLC . . . D 4 178.674 -3.839 46.09 1 74.33 ? O19 OLC 1102 B 1 HETATM 13 O O25 OLC . . . D 4 183.04 -7.477 48.982 1 75.41 ? O25 OLC 1102 B 1 HETATM 14 O O23 OLC . . . D 4 180.552 -8.009 47.724 1 76.08 ? O23 OLC 1102 B 1 HETATM 15 O O20 OLC . . . D 4 179.423 -5.949 46.275 1 74.73 ? O20 OLC 1102 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 249 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 15 #