data_5KKH # _model_server_result.job_id HZ9UogBpPGVhISE7h_pZ8g _model_server_result.datetime_utc '2024-11-02 03:24:20' _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 5kkh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 5KKH # _exptl.entry_id 5KKH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 356.54 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate' _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 116.26 _cell.angle_gamma 90 _cell.entry_id 5KKH _cell.length_a 106.11 _cell.length_b 61.27 _cell.length_c 119.03 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KKH _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 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,I,J,K,L,M,N,O,P,Q,R _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 F N N ? 2 H N N ? 2 I N N ? 2 L N N ? 2 M N 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 covale ? covale1 A NZ LYS 224 A LYS 224 1_555 G C15 RET . A RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale2 B NZ LYS 224 B LYS 224 1_555 K C15 RET . B RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.306 ? covale ? covale3 C NZ LYS 224 C LYS 224 1_555 O C15 RET . C RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.289 ? # _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 288 n n C10 C9 OLC doub 289 n n C10 C11 OLC sing 290 n n C9 C8 OLC sing 291 n n C17 C16 OLC sing 292 z n C11 C12 OLC sing 293 n n C8 C7 OLC sing 294 n n C24 C22 OLC sing 295 n n C24 O25 OLC sing 296 n n C16 C15 OLC sing 297 n n C12 C13 OLC sing 298 n n C7 C6 OLC sing 299 n n C15 C14 OLC sing 300 n n C13 C14 OLC sing 301 n n C6 C5 OLC sing 302 n n C5 C4 OLC sing 303 n n C4 C3 OLC sing 304 n n C3 C2 OLC sing 305 n n C2 C1 OLC sing 306 n n C21 C22 OLC sing 307 n n C21 O20 OLC sing 308 n n C1 O19 OLC doub 309 n n C1 O20 OLC sing 310 n n C22 O23 OLC sing 311 n n C18 H18 OLC sing 312 n n C18 H18A OLC sing 313 n n C18 H18B OLC sing 314 n n C10 H10 OLC sing 315 n n C9 H9 OLC sing 316 n n C17 H17 OLC sing 317 n n C17 H17A OLC sing 318 n n C11 H11 OLC sing 319 n n C11 H11A OLC sing 320 n n C8 H8 OLC sing 321 n n C8 H8A OLC sing 322 n n C24 H24 OLC sing 323 n n C24 H24A OLC sing 324 n n C16 H16 OLC sing 325 n n C16 H16A OLC sing 326 n n C12 H12 OLC sing 327 n n C12 H12A OLC sing 328 n n C7 H7 OLC sing 329 n n C7 H7A OLC sing 330 n n C15 H15 OLC sing 331 n n C15 H15A OLC sing 332 n n C13 H13 OLC sing 333 n n C13 H13A OLC sing 334 n n C6 H6 OLC sing 335 n n C6 H6A OLC sing 336 n n C14 H14 OLC sing 337 n n C14 H14A OLC sing 338 n n C5 H5 OLC sing 339 n n C5 H5A OLC sing 340 n n C4 H4 OLC sing 341 n n C4 H4A OLC sing 342 n n C3 H3 OLC sing 343 n n C3 H3A OLC sing 344 n n C2 H2 OLC sing 345 n n C2 H2A OLC sing 346 n n C21 H21 OLC sing 347 n n C21 H21A OLC sing 348 n n C22 H22 OLC sing 349 n n O25 HO25 OLC sing 350 n n O23 HO23 OLC sing 351 n n # _atom_sites.entry_id 5KKH _atom_sites.fract_transf_matrix[1][1] 0.009424 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00465 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016321 _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] 0.009368 _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 D 2 OLC A 1 301 3 OLC OLC . E 3 OLB A 1 302 5 OLB OLB . F 2 OLC A 1 303 7 OLC OLC . G 4 RET A 1 304 301 RET RET . H 2 OLC B 1 301 4 OLC OLC . I 2 OLC B 1 302 6 OLC OLC . J 3 OLB B 1 303 9 OLB OLB . K 4 RET B 1 304 303 RET RET . L 2 OLC C 1 301 1 OLC OLC . M 2 OLC C 1 302 2 OLC OLC . N 3 OLB C 1 303 8 OLB OLB . O 4 RET C 1 304 302 RET RET . P 5 HOH A 1 401 19 HOH HOH . P 5 HOH A 2 402 69 HOH HOH . P 5 HOH A 3 403 67 HOH HOH . P 5 HOH A 4 404 43 HOH HOH . P 5 HOH A 5 405 4 HOH HOH . P 5 HOH A 6 406 75 HOH HOH . P 5 HOH A 7 407 50 HOH HOH . P 5 HOH A 8 408 18 HOH HOH . P 5 HOH A 9 409 1 HOH HOH . P 5 HOH A 10 410 47 HOH HOH . P 5 HOH A 11 411 87 HOH HOH . P 5 HOH A 12 412 49 HOH HOH . P 5 HOH A 13 413 36 HOH HOH . P 5 HOH A 14 414 22 HOH HOH . P 5 HOH A 15 415 5 HOH HOH . P 5 HOH A 16 416 59 HOH HOH . P 5 HOH A 17 417 14 HOH HOH . P 5 HOH A 18 418 70 HOH HOH . P 5 HOH A 19 419 21 HOH HOH . P 5 HOH A 20 420 76 HOH HOH . P 5 HOH A 21 421 63 HOH HOH . P 5 HOH A 22 422 80 HOH HOH . P 5 HOH A 23 423 20 HOH HOH . P 5 HOH A 24 424 2 HOH HOH . P 5 HOH A 25 425 51 HOH HOH . P 5 HOH A 26 426 45 HOH HOH . P 5 HOH A 27 427 42 HOH HOH . P 5 HOH A 28 428 7 HOH HOH . P 5 HOH A 29 429 79 HOH HOH . P 5 HOH A 30 430 33 HOH HOH . P 5 HOH A 31 431 60 HOH HOH . P 5 HOH A 32 432 77 HOH HOH . Q 5 HOH B 1 401 12 HOH HOH . Q 5 HOH B 2 402 37 HOH HOH . Q 5 HOH B 3 403 83 HOH HOH . Q 5 HOH B 4 404 16 HOH HOH . Q 5 HOH B 5 405 81 HOH HOH . Q 5 HOH B 6 406 15 HOH HOH . Q 5 HOH B 7 407 6 HOH HOH . Q 5 HOH B 8 408 8 HOH HOH . Q 5 HOH B 9 409 10 HOH HOH . Q 5 HOH B 10 410 11 HOH HOH . Q 5 HOH B 11 411 71 HOH HOH . Q 5 HOH B 12 412 55 HOH HOH . Q 5 HOH B 13 413 9 HOH HOH . Q 5 HOH B 14 414 24 HOH HOH . Q 5 HOH B 15 415 54 HOH HOH . Q 5 HOH B 16 416 74 HOH HOH . Q 5 HOH B 17 417 53 HOH HOH . Q 5 HOH B 18 418 85 HOH HOH . Q 5 HOH B 19 419 38 HOH HOH . Q 5 HOH B 20 420 13 HOH HOH . Q 5 HOH B 21 421 82 HOH HOH . Q 5 HOH B 22 422 62 HOH HOH . R 5 HOH C 1 401 39 HOH HOH . R 5 HOH C 2 402 66 HOH HOH . R 5 HOH C 3 403 28 HOH HOH . R 5 HOH C 4 404 32 HOH HOH . R 5 HOH C 5 405 61 HOH HOH . R 5 HOH C 6 406 68 HOH HOH . R 5 HOH C 7 407 65 HOH HOH . R 5 HOH C 8 408 23 HOH HOH . R 5 HOH C 9 409 25 HOH HOH . R 5 HOH C 10 410 73 HOH HOH . R 5 HOH C 11 411 26 HOH HOH . R 5 HOH C 12 412 86 HOH HOH . R 5 HOH C 13 413 44 HOH HOH . R 5 HOH C 14 414 58 HOH HOH . R 5 HOH C 15 415 34 HOH HOH . R 5 HOH C 16 416 29 HOH HOH . R 5 HOH C 17 417 72 HOH HOH . R 5 HOH C 18 418 48 HOH HOH . R 5 HOH C 19 419 41 HOH HOH . R 5 HOH C 20 420 17 HOH HOH . R 5 HOH C 21 421 57 HOH HOH . R 5 HOH C 22 422 27 HOH HOH . R 5 HOH C 23 423 56 HOH HOH . R 5 HOH C 24 424 31 HOH HOH . R 5 HOH C 25 425 30 HOH HOH . R 5 HOH C 26 426 64 HOH HOH . R 5 HOH C 27 427 40 HOH HOH . R 5 HOH C 28 428 46 HOH HOH . R 5 HOH C 29 429 84 HOH HOH . R 5 HOH C 30 430 78 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 C18 OLC . . . D 2 -29.297 10.551 143.219 1 25.26 ? C18 OLC 301 A 1 HETATM 2 C C10 OLC . . . D 2 -27.188 13.109 135.821 1 29.11 ? C10 OLC 301 A 1 HETATM 3 C C9 OLC . . . D 2 -27.172 13.534 134.548 1 26.5 ? C9 OLC 301 A 1 HETATM 4 C C17 OLC . . . D 2 -28.248 11.671 143.103 1 24.61 ? C17 OLC 301 A 1 HETATM 5 C C11 OLC . . . D 2 -28.532 12.942 136.557 1 28.33 ? C11 OLC 301 A 1 HETATM 6 C C8 OLC . . . D 2 -28.49 13.863 133.824 1 30.83 ? C8 OLC 301 A 1 HETATM 7 C C24 OLC . . . D 2 -27.436 12.059 121.373 1 41.08 ? C24 OLC 301 A 1 HETATM 8 C C16 OLC . . . D 2 -27.167 11.26 142.088 1 22 ? C16 OLC 301 A 1 HETATM 9 C C12 OLC . . . D 2 -28.263 12.71 138.058 1 35.22 ? C12 OLC 301 A 1 HETATM 10 C C7 OLC . . . D 2 -28.438 13.308 132.386 1 27.67 ? C7 OLC 301 A 1 HETATM 11 C C15 OLC . . . D 2 -27.751 11.32 140.663 1 26.95 ? C15 OLC 301 A 1 HETATM 12 C C13 OLC . . . D 2 -27.185 11.622 138.227 1 33.38 ? C13 OLC 301 A 1 HETATM 13 C C6 OLC . . . D 2 -29.419 14.104 131.5 1 27.43 ? C6 OLC 301 A 1 HETATM 14 C C14 OLC . . . D 2 -26.628 11.663 139.664 1 31.73 ? C14 OLC 301 A 1 HETATM 15 C C5 OLC . . . D 2 -29.315 13.594 130.045 1 31.96 ? C5 OLC 301 A 1 HETATM 16 C C4 OLC . . . D 2 -29.837 14.687 129.088 1 29.84 ? C4 OLC 301 A 1 HETATM 17 C C3 OLC . . . D 2 -30.01 14.089 127.677 1 32.34 ? C3 OLC 301 A 1 HETATM 18 C C2 OLC . . . D 2 -28.632 13.725 127.099 1 30.08 ? C2 OLC 301 A 1 HETATM 19 C C21 OLC . . . D 2 -27.629 11.758 123.862 1 32.7 ? C21 OLC 301 A 1 HETATM 20 C C1 OLC . . . D 2 -28.817 12.981 125.76 1 35.53 ? C1 OLC 301 A 1 HETATM 21 C C22 OLC . . . D 2 -28.107 12.587 122.655 1 32.51 ? C22 OLC 301 A 1 HETATM 22 O O19 OLC . . . D 2 -29.943 12.8 125.298 1 35.83 ? O19 OLC 301 A 1 HETATM 23 O O25 OLC . . . D 2 -26.006 12.06 121.446 1 33.31 ? O25 OLC 301 A 1 HETATM 24 O O23 OLC . . . D 2 -29.525 12.464 122.503 1 31.7 ? O23 OLC 301 A 1 HETATM 25 O O20 OLC . . . D 2 -27.649 12.505 125.085 1 45.34 ? O20 OLC 301 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 25 #