data_1YOK # _model_server_result.job_id nVSfjcqNzfsh0riRHBSYEw _model_server_result.datetime_utc '2024-11-06 20:39:45' _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 1yok # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":100}' # _entry.id 1YOK # _exptl.entry_id 1YOK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 746.991 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2S)-3-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-2-[(6E)-HEXADEC-6-ENOYLOXY]PROPYL (8E)-OCTADEC-8-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 90 _cell.angle_gamma 90 _cell.entry_id 1YOK _cell.length_a 59.938 _cell.length_b 67.199 _cell.length_c 79.569 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YOK _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C40 H75 O10 P' _chem_comp.formula_weight 746.991 _chem_comp.id P6L _chem_comp.mon_nstd_flag . _chem_comp.name '(2S)-3-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-2-[(6E)-HEXADEC-6-ENOYLOXY]PROPYL (8E)-OCTADEC-8-ENOATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 C2 P6L sing 237 n n C1 O12 P6L sing 238 n n C1 H11 P6L sing 239 n n C1 H12 P6L sing 240 n n C2 O3 P6L sing 241 n n C2 C50 P6L sing 242 n n C2 H2 P6L sing 243 n n O3 HO3 P6L sing 244 n n O4 C5 P6L sing 245 n n O4 C14 P6L sing 246 n n C5 C6 P6L sing 247 n n C5 C7 P6L sing 248 n n C5 H5 P6L sing 249 n n C6 O8 P6L sing 250 n n C6 H61 P6L sing 251 n n C6 H62 P6L sing 252 n n C7 O9 P6L sing 253 n n C7 H71 P6L sing 254 n n C7 H72 P6L sing 255 n n O8 C16 P6L sing 256 n n O9 P11 P6L sing 257 n n O10 P11 P6L doub 258 n n P11 O12 P6L sing 259 n n P11 O13 P6L sing 260 n n O13 H13 P6L sing 261 n n C14 O15 P6L doub 262 n n C14 C18 P6L sing 263 n n C16 O17 P6L doub 264 n n C16 C27 P6L sing 265 n n C18 C19 P6L sing 266 n n C18 H181 P6L sing 267 n n C18 H182 P6L sing 268 n n C19 C20 P6L sing 269 n n C19 H191 P6L sing 270 n n C19 H192 P6L sing 271 n n C20 C21 P6L sing 272 n n C20 H201 P6L sing 273 n n C20 H202 P6L sing 274 n n C21 C22 P6L sing 275 n n C21 H211 P6L sing 276 n n C21 H212 P6L sing 277 n n C22 C23 P6L doub 278 z n C22 H22 P6L sing 279 n n C23 C24 P6L sing 280 n n C23 H23 P6L sing 281 n n C24 C25 P6L sing 282 n n C24 H241 P6L sing 283 n n C24 H242 P6L sing 284 n n C25 C26 P6L sing 285 n n C25 H251 P6L sing 286 n n C25 H252 P6L sing 287 n n C26 C37 P6L sing 288 n n C26 H261 P6L sing 289 n n C26 H262 P6L sing 290 n n C27 C28 P6L sing 291 n n C27 H271 P6L sing 292 n n C27 H272 P6L sing 293 n n C28 C29 P6L sing 294 n n C28 H281 P6L sing 295 n n C28 H282 P6L sing 296 n n C29 C30 P6L sing 297 n n C29 H291 P6L sing 298 n n C29 H292 P6L sing 299 n n C30 C31 P6L sing 300 n n C30 H301 P6L sing 301 n n C30 H302 P6L sing 302 n n C31 C32 P6L sing 303 n n C31 H311 P6L sing 304 n n C31 H312 P6L sing 305 n n C32 C33 P6L sing 306 n n C32 H321 P6L sing 307 n n C32 H322 P6L sing 308 n n C33 C34 P6L doub 309 e n C33 H33 P6L sing 310 n n C34 C35 P6L sing 311 n n C34 H34 P6L sing 312 n n C35 C36 P6L sing 313 n n C35 H351 P6L sing 314 n n C35 H352 P6L sing 315 n n C36 C38 P6L sing 316 n n C36 H361 P6L sing 317 n n C36 H362 P6L sing 318 n n C37 C45 P6L sing 319 n n C37 H371 P6L sing 320 n n C37 H372 P6L sing 321 n n C38 C39 P6L sing 322 n n C38 H381 P6L sing 323 n n C38 H382 P6L sing 324 n n C39 C40 P6L sing 325 n n C39 H391 P6L sing 326 n n C39 H392 P6L sing 327 n n C40 C41 P6L sing 328 n n C40 H401 P6L sing 329 n n C40 H402 P6L sing 330 n n C41 C42 P6L sing 331 n n C41 H411 P6L sing 332 n n C41 H412 P6L sing 333 n n C42 C43 P6L sing 334 n n C42 H421 P6L sing 335 n n C42 H422 P6L sing 336 n n C43 C44 P6L sing 337 n n C43 H431 P6L sing 338 n n C43 H432 P6L sing 339 n n C44 H441 P6L sing 340 n n C44 H442 P6L sing 341 n n C44 H443 P6L sing 342 n n C45 C46 P6L sing 343 n n C45 H451 P6L sing 344 n n C45 H452 P6L sing 345 n n C46 C47 P6L sing 346 n n C46 H461 P6L sing 347 n n C46 H462 P6L sing 348 n n C47 C48 P6L sing 349 n n C47 H471 P6L sing 350 n n C47 H472 P6L sing 351 n n C48 C49 P6L sing 352 n n C48 H481 P6L sing 353 n n C48 H482 P6L sing 354 n n C49 H491 P6L sing 355 n n C49 H492 P6L sing 356 n n C49 H493 P6L sing 357 n n C50 O51 P6L sing 358 n n C50 H501 P6L sing 359 n n C50 H502 P6L sing 360 n n O51 H51 P6L sing 361 n n # _atom_sites.entry_id 1YOK _atom_sites.fract_transf_matrix[1][1] 0.016684 _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] 0.014881 _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] 0.012568 _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 3 P6L A 1 100 1 P6L PGL . E 4 HOH A 1 1 1 HOH HOH . E 4 HOH A 2 2 2 HOH HOH . E 4 HOH A 3 3 3 HOH HOH . E 4 HOH A 4 4 4 HOH HOH . E 4 HOH A 5 5 5 HOH HOH . E 4 HOH A 6 6 6 HOH HOH . E 4 HOH A 7 7 7 HOH HOH . E 4 HOH A 8 8 8 HOH HOH . E 4 HOH A 9 9 9 HOH HOH . E 4 HOH A 10 10 10 HOH HOH . E 4 HOH A 11 11 11 HOH HOH . E 4 HOH A 12 12 12 HOH HOH . E 4 HOH A 13 14 14 HOH HOH . E 4 HOH A 14 15 15 HOH HOH . E 4 HOH A 15 16 16 HOH HOH . E 4 HOH A 16 17 17 HOH HOH . E 4 HOH A 17 19 19 HOH HOH . E 4 HOH A 18 21 21 HOH HOH . E 4 HOH A 19 22 22 HOH HOH . E 4 HOH A 20 23 23 HOH HOH . E 4 HOH A 21 24 24 HOH HOH . E 4 HOH A 22 28 28 HOH HOH . E 4 HOH A 23 30 30 HOH HOH . E 4 HOH A 24 31 31 HOH HOH . E 4 HOH A 25 32 32 HOH HOH . E 4 HOH A 26 33 33 HOH HOH . E 4 HOH A 27 34 34 HOH HOH . E 4 HOH A 28 35 35 HOH HOH . E 4 HOH A 29 36 36 HOH HOH . E 4 HOH A 30 37 37 HOH HOH . E 4 HOH A 31 40 40 HOH HOH . E 4 HOH A 32 41 41 HOH HOH . E 4 HOH A 33 42 42 HOH HOH . E 4 HOH A 34 43 43 HOH HOH . E 4 HOH A 35 44 44 HOH HOH . E 4 HOH A 36 45 45 HOH HOH . E 4 HOH A 37 46 46 HOH HOH . E 4 HOH A 38 47 47 HOH HOH . E 4 HOH A 39 48 48 HOH HOH . E 4 HOH A 40 49 49 HOH HOH . E 4 HOH A 41 50 50 HOH HOH . E 4 HOH A 42 51 51 HOH HOH . E 4 HOH A 43 52 52 HOH HOH . E 4 HOH A 44 53 53 HOH HOH . E 4 HOH A 45 54 54 HOH HOH . E 4 HOH A 46 55 55 HOH HOH . E 4 HOH A 47 56 56 HOH HOH . E 4 HOH A 48 57 57 HOH HOH . E 4 HOH A 49 58 58 HOH HOH . E 4 HOH A 50 60 60 HOH HOH . E 4 HOH A 51 61 61 HOH HOH . E 4 HOH A 52 62 62 HOH HOH . E 4 HOH A 53 63 63 HOH HOH . E 4 HOH A 54 64 64 HOH HOH . E 4 HOH A 55 65 65 HOH HOH . E 4 HOH A 56 66 66 HOH HOH . E 4 HOH A 57 67 67 HOH HOH . E 4 HOH A 58 68 68 HOH HOH . E 4 HOH A 59 69 69 HOH HOH . E 4 HOH A 60 71 71 HOH HOH . E 4 HOH A 61 72 72 HOH HOH . E 4 HOH A 62 73 73 HOH HOH . E 4 HOH A 63 77 77 HOH HOH . E 4 HOH A 64 78 78 HOH HOH . E 4 HOH A 65 79 79 HOH HOH . E 4 HOH A 66 80 80 HOH HOH . E 4 HOH A 67 81 81 HOH HOH . E 4 HOH A 68 82 82 HOH HOH . E 4 HOH A 69 84 84 HOH HOH . E 4 HOH A 70 85 85 HOH HOH . F 4 HOH B 1 13 13 HOH HOH . F 4 HOH B 2 20 20 HOH HOH . F 4 HOH B 3 25 25 HOH HOH . F 4 HOH B 4 29 29 HOH HOH . F 4 HOH B 5 38 38 HOH HOH . F 4 HOH B 6 59 59 HOH HOH . F 4 HOH B 7 83 83 HOH HOH . F 4 HOH B 8 86 86 HOH HOH . G 4 HOH C 1 18 18 HOH HOH . G 4 HOH C 2 26 26 HOH HOH . G 4 HOH C 3 27 27 HOH HOH . G 4 HOH C 4 39 39 HOH HOH . G 4 HOH C 5 70 70 HOH HOH . G 4 HOH C 6 74 74 HOH HOH . G 4 HOH C 7 75 75 HOH HOH . G 4 HOH C 8 76 76 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 P6L . . . D 3 32.011 9.378 28.785 1 77.22 ? C1 P6L 100 A 1 HETATM 2 C C2 P6L . . . D 3 32.82 9.562 27.501 1 72.76 ? C2 P6L 100 A 1 HETATM 3 O O3 P6L . . . D 3 32.683 10.905 27.151 1 71.38 ? O3 P6L 100 A 1 HETATM 4 O O4 P6L . . . D 3 29.712 12.181 35.014 1 95.61 ? O4 P6L 100 A 1 HETATM 5 C C5 P6L . . . D 3 31.02 11.894 34.554 1 93.24 ? C5 P6L 100 A 1 HETATM 6 C C6 P6L . . . D 3 31.695 11.209 35.737 1 95.49 ? C6 P6L 100 A 1 HETATM 7 C C7 P6L . . . D 3 30.925 11.117 33.24 1 89.7 ? C7 P6L 100 A 1 HETATM 8 O O8 P6L . . . D 3 31.526 12.109 36.835 1 99.05 ? O8 P6L 100 A 1 HETATM 9 O O9 P6L . . . D 3 32.117 10.844 32.45 1 84.33 ? O9 P6L 100 A 1 HETATM 10 O O10 P6L . . . D 3 30.229 10.511 30.886 1 82.84 ? O10 P6L 100 A 1 HETATM 11 P P11 P6L . . . D 3 31.618 10.069 31.193 1 83.59 ? P11 P6L 100 A 1 HETATM 12 O O12 P6L . . . D 3 32.475 10.256 29.9 1 81.39 ? O12 P6L 100 A 1 HETATM 13 O O13 P6L . . . D 3 31.561 8.6 31.51 1 86.02 ? O13 P6L 100 A 1 HETATM 14 C C14 P6L . . . D 3 29.261 13.475 35.064 1 96.31 ? C14 P6L 100 A 1 HETATM 15 O O15 P6L . . . D 3 28.24 13.709 35.702 1 98.06 ? O15 P6L 100 A 1 HETATM 16 C C16 P6L . . . D 3 32.296 13.239 36.879 1 100.91 ? C16 P6L 100 A 1 HETATM 17 O O17 P6L . . . D 3 33.054 13.495 35.944 1 101.71 ? O17 P6L 100 A 1 HETATM 18 C C18 P6L . . . D 3 30.023 14.595 34.369 1 95.71 ? C18 P6L 100 A 1 HETATM 19 C C19 P6L . . . D 3 29.193 15.865 34.202 1 94.65 ? C19 P6L 100 A 1 HETATM 20 C C20 P6L . . . D 3 27.888 15.556 33.496 1 94.56 ? C20 P6L 100 A 1 HETATM 21 C C21 P6L . . . D 3 27.021 16.782 33.321 1 93.5 ? C21 P6L 100 A 1 HETATM 22 C C22 P6L . . . D 3 25.656 16.368 32.804 1 93.72 ? C22 P6L 100 A 1 HETATM 23 C C23 P6L . . . D 3 24.823 17.56 32.369 1 94.09 ? C23 P6L 100 A 1 HETATM 24 C C24 P6L . . . D 3 25.513 18.321 31.256 1 94.26 ? C24 P6L 100 A 1 HETATM 25 C C25 P6L . . . D 3 26.131 17.362 30.257 1 94.43 ? C25 P6L 100 A 1 HETATM 26 C C26 P6L . . . D 3 26.748 18.081 29.064 1 94.65 ? C26 P6L 100 A 1 HETATM 27 C C27 P6L . . . D 3 32.189 14.173 38.082 1 101.77 ? C27 P6L 100 A 1 HETATM 28 C C28 P6L . . . D 3 31.076 15.228 37.962 1 101.7 ? C28 P6L 100 A 1 HETATM 29 C C29 P6L . . . D 3 31.305 16.22 36.813 1 101.36 ? C29 P6L 100 A 1 HETATM 30 C C30 P6L . . . D 3 30.689 17.588 37.13 1 100.94 ? C30 P6L 100 A 1 HETATM 31 C C31 P6L . . . D 3 30.561 18.502 35.899 1 98.66 ? C31 P6L 100 A 1 HETATM 32 C C32 P6L . . . D 3 30.197 19.923 36.326 1 95.61 ? C32 P6L 100 A 1 HETATM 33 C C33 P6L . . . D 3 29.534 20.722 35.217 1 93.64 ? C33 P6L 100 A 1 HETATM 34 C C34 P6L . . . D 3 28.212 20.094 34.818 1 92.92 ? C34 P6L 100 A 1 HETATM 35 C C35 P6L . . . D 3 27.17 21.14 34.432 1 91.98 ? C35 P6L 100 A 1 HETATM 36 C C36 P6L . . . D 3 27.636 22.022 33.28 1 90.52 ? C36 P6L 100 A 1 HETATM 37 C C37 P6L . . . D 3 27.716 19.191 29.468 1 94.52 ? C37 P6L 100 A 1 HETATM 38 C C38 P6L . . . D 3 26.598 23.093 32.962 1 88.96 ? C38 P6L 100 A 1 HETATM 39 C C39 P6L . . . D 3 25.367 22.512 32.288 1 86.42 ? C39 P6L 100 A 1 HETATM 40 C C40 P6L . . . D 3 25.63 22.238 30.818 1 85.02 ? C40 P6L 100 A 1 HETATM 41 C C41 P6L . . . D 3 24.42 21.623 30.139 1 83.66 ? C41 P6L 100 A 1 HETATM 42 C C42 P6L . . . D 3 24.641 21.527 28.64 1 83.29 ? C42 P6L 100 A 1 HETATM 43 C C43 P6L . . . D 3 23.552 20.716 27.963 1 82.39 ? C43 P6L 100 A 1 HETATM 44 C C44 P6L . . . D 3 23.641 19.276 28.412 1 83.24 ? C44 P6L 100 A 1 HETATM 45 C C45 P6L . . . D 3 28.785 18.722 30.444 1 93.18 ? C45 P6L 100 A 1 HETATM 46 C C46 P6L . . . D 3 29.951 19.704 30.473 1 91.66 ? C46 P6L 100 A 1 HETATM 47 C C47 P6L . . . D 3 29.49 21.137 30.652 1 89.29 ? C47 P6L 100 A 1 HETATM 48 C C48 P6L . . . D 3 30.661 22.086 30.54 1 88.08 ? C48 P6L 100 A 1 HETATM 49 C C49 P6L . . . D 3 31.732 21.641 31.51 1 87.7 ? C49 P6L 100 A 1 HETATM 50 C C50 P6L . . . D 3 32.423 8.688 26.313 1 70.1 ? C50 P6L 100 A 1 HETATM 51 O O51 P6L . . . D 3 33.264 9.005 25.216 1 65.19 ? O51 P6L 100 A 1 # _model_server_stats.io_time_ms 52 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 51 #