data_6RF0 # _model_server_result.job_id -jHqnthxAuBdbGKIKx5QJA _model_server_result.datetime_utc '2024-11-16 08:31:33' _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 6rf0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"X","auth_seq_id":303}' # _entry.id 6RF0 # _exptl.entry_id 6RF0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 356.54 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate' _entity.pdbx_number_of_molecules 5 _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 6RF0 _cell.length_a 128.184 _cell.length_b 239.719 _cell.length_c 131.909 _cell.Z_PDB 40 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RF0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA _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 ? 3 G N N ? 3 N N N ? 3 S N N ? 3 X N N ? 3 BA 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 255 A LYS 255 1_555 J C15 RET . A RET 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale2 B NZ LYS 255 B LYS 255 1_555 P C15 RET . B RET 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale3 C NZ LYS 255 C LYS 255 1_555 U C15 RET . C RET 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale4 D NZ LYS 255 D LYS 255 1_555 Z C15 RET . D RET 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale5 E NZ LYS 255 E LYS 255 1_555 DA C15 RET . E RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? metalc ? metalc1 A OH TYR 25 A TYR 25 1_555 F NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? metalc ? metalc2 A O THR 83 A THR 83 1_555 F NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc3 A O PHE 86 A PHE 86 1_555 F NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc4 A OD1 ASP 102 A ASP 102 1_555 I NA NA . A NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.773 ? metalc ? metalc5 A OD2 ASP 102 A ASP 102 1_555 I NA NA . A NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? metalc ? metalc6 F NA NA . A NA 301 1_555 B OD1 ASP 102 B ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.505 ? metalc ? metalc7 F NA NA . A NA 301 1_555 B OD2 ASP 102 B ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.936 ? metalc ? metalc8 I NA NA . A NA 304 1_555 E OH TYR 25 E TYR 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.981 ? metalc ? metalc9 I NA NA . A NA 304 1_555 E O THR 83 E THR 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc10 I NA NA . A NA 304 1_555 E O PHE 86 E PHE 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc11 B OH TYR 25 B TYR 25 1_555 K NA NA . B NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.467 ? metalc ? metalc12 B O THR 83 B THR 83 1_555 K NA NA . B NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc13 B O PHE 86 B PHE 86 1_555 K NA NA . B NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc14 K NA NA . B NA 301 1_555 C OD1 ASP 102 C ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.89 ? metalc ? metalc15 K NA NA . B NA 301 1_555 C OD2 ASP 102 C ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.673 ? metalc ? metalc16 C OH TYR 25 C TYR 25 1_555 Q NA NA . C NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc17 C O THR 83 C THR 83 1_555 Q NA NA . C NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc18 C O PHE 86 C PHE 86 1_555 Q NA NA . C NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? metalc ? metalc19 Q NA NA . C NA 301 1_555 D OD1 ASP 102 D ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.968 ? metalc ? metalc20 Q NA NA . C NA 301 1_555 D OD2 ASP 102 D ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.969 ? metalc ? metalc21 D OH TYR 25 D TYR 25 1_555 V NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.037 ? metalc ? metalc22 D O THR 83 D THR 83 1_555 V NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc23 D O PHE 86 D PHE 86 1_555 V NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? metalc ? metalc24 V NA NA . D NA 301 1_555 E OD1 ASP 102 E ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.812 ? metalc ? metalc25 V NA NA . D NA 301 1_555 E OD2 ASP 102 E ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.607 ? # _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 285 n n C10 C9 OLC doub 286 n n C10 C11 OLC sing 287 n n C9 C8 OLC sing 288 n n C17 C16 OLC sing 289 z n C11 C12 OLC sing 290 n n C8 C7 OLC sing 291 n n C24 C22 OLC sing 292 n n C24 O25 OLC sing 293 n n C16 C15 OLC sing 294 n n C12 C13 OLC sing 295 n n C7 C6 OLC sing 296 n n C15 C14 OLC sing 297 n n C13 C14 OLC sing 298 n n C6 C5 OLC sing 299 n n C5 C4 OLC sing 300 n n C4 C3 OLC sing 301 n n C3 C2 OLC sing 302 n n C2 C1 OLC sing 303 n n C21 C22 OLC sing 304 n n C21 O20 OLC sing 305 n n C1 O19 OLC doub 306 n n C1 O20 OLC sing 307 n n C22 O23 OLC sing 308 n n C18 H18 OLC sing 309 n n C18 H18A OLC sing 310 n n C18 H18B OLC sing 311 n n C10 H10 OLC sing 312 n n C9 H9 OLC sing 313 n n C17 H17 OLC sing 314 n n C17 H17A OLC sing 315 n n C11 H11 OLC sing 316 n n C11 H11A OLC sing 317 n n C8 H8 OLC sing 318 n n C8 H8A OLC sing 319 n n C24 H24 OLC sing 320 n n C24 H24A OLC sing 321 n n C16 H16 OLC sing 322 n n C16 H16A OLC sing 323 n n C12 H12 OLC sing 324 n n C12 H12A OLC sing 325 n n C7 H7 OLC sing 326 n n C7 H7A OLC sing 327 n n C15 H15 OLC sing 328 n n C15 H15A OLC sing 329 n n C13 H13 OLC sing 330 n n C13 H13A OLC sing 331 n n C6 H6 OLC sing 332 n n C6 H6A OLC sing 333 n n C14 H14 OLC sing 334 n n C14 H14A OLC sing 335 n n C5 H5 OLC sing 336 n n C5 H5A OLC sing 337 n n C4 H4 OLC sing 338 n n C4 H4A OLC sing 339 n n C3 H3 OLC sing 340 n n C3 H3A OLC sing 341 n n C2 H2 OLC sing 342 n n C2 H2A OLC sing 343 n n C21 H21 OLC sing 344 n n C21 H21A OLC sing 345 n n C22 H22 OLC sing 346 n n O25 HO25 OLC sing 347 n n O23 HO23 OLC sing 348 n n # _atom_sites.entry_id 6RF0 _atom_sites.fract_transf_matrix[1][1] 0.007801 _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] 0.004172 _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] 0.007581 _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 F 2 NA A 1 301 301 NA NA . G 3 OLC A 1 302 401 OLC OLC . H 4 LFA A 1 303 501 LFA LFA . I 2 NA A 1 304 301 NA NA . J 5 RET A 1 305 255 RET LYR . K 2 NA B 1 301 301 NA NA . L 4 LFA B 1 302 303 LFA LFA . M 4 LFA B 1 303 304 LFA LFA . N 3 OLC B 1 304 401 OLC OLC . O 4 LFA B 1 305 501 LFA LFA . P 5 RET B 1 306 255 RET LYR . Q 2 NA C 1 301 301 NA NA . R 4 LFA C 1 302 303 LFA LFA . S 3 OLC C 1 303 401 OLC OLC . T 4 LFA C 1 304 501 LFA LFA . U 5 RET C 1 305 255 RET LYR . V 2 NA D 1 301 301 NA NA . W 4 LFA D 1 302 303 LFA LFA . X 3 OLC D 1 303 401 OLC OLC . Y 4 LFA D 1 304 501 LFA LFA . Z 5 RET D 1 305 255 RET LYR . AA 4 LFA E 1 301 302 LFA LFA . BA 3 OLC E 1 302 401 OLC OLC . CA 4 LFA E 1 303 601 LFA LFA . DA 5 RET E 1 304 255 RET LYR . EA 6 HOH A 1 401 9 HOH HOH . EA 6 HOH A 2 402 28 HOH HOH . EA 6 HOH A 3 403 3 HOH HOH . EA 6 HOH A 4 404 32 HOH HOH . EA 6 HOH A 5 405 23 HOH HOH . EA 6 HOH A 6 406 10 HOH HOH . EA 6 HOH A 7 407 2 HOH HOH . EA 6 HOH A 8 408 35 HOH HOH . EA 6 HOH A 9 409 41 HOH HOH . FA 6 HOH B 1 401 33 HOH HOH . FA 6 HOH B 2 402 21 HOH HOH . FA 6 HOH B 3 403 42 HOH HOH . FA 6 HOH B 4 404 12 HOH HOH . FA 6 HOH B 5 405 36 HOH HOH . FA 6 HOH B 6 406 24 HOH HOH . GA 6 HOH C 1 401 29 HOH HOH . GA 6 HOH C 2 402 14 HOH HOH . GA 6 HOH C 3 403 13 HOH HOH . GA 6 HOH C 4 404 22 HOH HOH . GA 6 HOH C 5 405 8 HOH HOH . GA 6 HOH C 6 406 16 HOH HOH . GA 6 HOH C 7 407 15 HOH HOH . GA 6 HOH C 8 408 34 HOH HOH . GA 6 HOH C 9 409 27 HOH HOH . GA 6 HOH C 10 410 37 HOH HOH . HA 6 HOH D 1 401 30 HOH HOH . HA 6 HOH D 2 402 7 HOH HOH . HA 6 HOH D 3 403 11 HOH HOH . HA 6 HOH D 4 404 19 HOH HOH . HA 6 HOH D 5 405 38 HOH HOH . HA 6 HOH D 6 406 39 HOH HOH . HA 6 HOH D 7 407 6 HOH HOH . HA 6 HOH D 8 408 40 HOH HOH . HA 6 HOH D 9 409 17 HOH HOH . IA 6 HOH E 1 401 31 HOH HOH . IA 6 HOH E 2 402 20 HOH HOH . IA 6 HOH E 3 403 18 HOH HOH . IA 6 HOH E 4 404 25 HOH HOH . IA 6 HOH E 5 405 5 HOH HOH . IA 6 HOH E 6 406 26 HOH HOH . IA 6 HOH E 7 407 1 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 C24 OLC . . . X 3 -30.768 -12.786 -34.997 1 70 ? C24 OLC 303 D 1 HETATM 2 C C5 OLC . . . X 3 -25.429 -20.543 -33.399 1 50.35 ? C5 OLC 303 D 1 HETATM 3 C C4 OLC . . . X 3 -25.842 -19.078 -33.248 1 53.95 ? C4 OLC 303 D 1 HETATM 4 C C3 OLC . . . X 3 -27.158 -18.777 -33.968 1 51.73 ? C3 OLC 303 D 1 HETATM 5 C C2 OLC . . . X 3 -27.017 -17.577 -34.9 1 50.2 ? C2 OLC 303 D 1 HETATM 6 C C21 OLC . . . X 3 -29.814 -15.007 -35.689 1 58.23 ? C21 OLC 303 D 1 HETATM 7 C C1 OLC . . . X 3 -28.366 -16.991 -35.241 1 46.73 ? C1 OLC 303 D 1 HETATM 8 C C22 OLC . . . X 3 -29.751 -13.491 -35.891 1 64.03 ? C22 OLC 303 D 1 HETATM 9 O O19 OLC . . . X 3 -29.338 -17.708 -35.396 1 49.64 ? O19 OLC 303 D 1 HETATM 10 O O25 OLC . . . X 3 -30.249 -11.531 -34.538 1 76.17 ? O25 OLC 303 D 1 HETATM 11 O O23 OLC . . . X 3 -28.441 -12.995 -35.596 1 77.31 ? O23 OLC 303 D 1 HETATM 12 O O20 OLC . . . X 3 -28.524 -15.554 -35.4 1 49.13 ? O20 OLC 303 D 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 29 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 12 #