data_5O5E # _model_server_result.job_id hsOSZcLzoQybCy8RK4fAbw _model_server_result.datetime_utc '2024-11-28 21:16:28' _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 5o5e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 5O5E # _exptl.entry_id 5O5E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 746.991 _entity.id 2 _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 120 _cell.entry_id 5O5E _cell.length_a 102.091 _cell.length_b 102.091 _cell.length_c 240.061 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5O5E _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details 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 # 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' 10_666 -y+1,-x+1,-z+7/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 51.0455 88.413399 280.071167 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 360 n n C1 O12 P6L sing 361 n n C1 H11 P6L sing 362 n n C1 H12 P6L sing 363 n n C2 O3 P6L sing 364 n n C2 C50 P6L sing 365 n n C2 H2 P6L sing 366 n n O3 HO3 P6L sing 367 n n O4 C5 P6L sing 368 n n O4 C14 P6L sing 369 n n C5 C6 P6L sing 370 n n C5 C7 P6L sing 371 n n C5 H5 P6L sing 372 n n C6 O8 P6L sing 373 n n C6 H61 P6L sing 374 n n C6 H62 P6L sing 375 n n C7 O9 P6L sing 376 n n C7 H71 P6L sing 377 n n C7 H72 P6L sing 378 n n O8 C16 P6L sing 379 n n O9 P11 P6L sing 380 n n O10 P11 P6L doub 381 n n P11 O12 P6L sing 382 n n P11 O13 P6L sing 383 n n O13 H13 P6L sing 384 n n C14 O15 P6L doub 385 n n C14 C18 P6L sing 386 n n C16 O17 P6L doub 387 n n C16 C27 P6L sing 388 n n C18 C19 P6L sing 389 n n C18 H181 P6L sing 390 n n C18 H182 P6L sing 391 n n C19 C20 P6L sing 392 n n C19 H191 P6L sing 393 n n C19 H192 P6L sing 394 n n C20 C21 P6L sing 395 n n C20 H201 P6L sing 396 n n C20 H202 P6L sing 397 n n C21 C22 P6L sing 398 n n C21 H211 P6L sing 399 n n C21 H212 P6L sing 400 n n C22 C23 P6L doub 401 z n C22 H22 P6L sing 402 n n C23 C24 P6L sing 403 n n C23 H23 P6L sing 404 n n C24 C25 P6L sing 405 n n C24 H241 P6L sing 406 n n C24 H242 P6L sing 407 n n C25 C26 P6L sing 408 n n C25 H251 P6L sing 409 n n C25 H252 P6L sing 410 n n C26 C37 P6L sing 411 n n C26 H261 P6L sing 412 n n C26 H262 P6L sing 413 n n C27 C28 P6L sing 414 n n C27 H271 P6L sing 415 n n C27 H272 P6L sing 416 n n C28 C29 P6L sing 417 n n C28 H281 P6L sing 418 n n C28 H282 P6L sing 419 n n C29 C30 P6L sing 420 n n C29 H291 P6L sing 421 n n C29 H292 P6L sing 422 n n C30 C31 P6L sing 423 n n C30 H301 P6L sing 424 n n C30 H302 P6L sing 425 n n C31 C32 P6L sing 426 n n C31 H311 P6L sing 427 n n C31 H312 P6L sing 428 n n C32 C33 P6L sing 429 n n C32 H321 P6L sing 430 n n C32 H322 P6L sing 431 n n C33 C34 P6L doub 432 e n C33 H33 P6L sing 433 n n C34 C35 P6L sing 434 n n C34 H34 P6L sing 435 n n C35 C36 P6L sing 436 n n C35 H351 P6L sing 437 n n C35 H352 P6L sing 438 n n C36 C38 P6L sing 439 n n C36 H361 P6L sing 440 n n C36 H362 P6L sing 441 n n C37 C45 P6L sing 442 n n C37 H371 P6L sing 443 n n C37 H372 P6L sing 444 n n C38 C39 P6L sing 445 n n C38 H381 P6L sing 446 n n C38 H382 P6L sing 447 n n C39 C40 P6L sing 448 n n C39 H391 P6L sing 449 n n C39 H392 P6L sing 450 n n C40 C41 P6L sing 451 n n C40 H401 P6L sing 452 n n C40 H402 P6L sing 453 n n C41 C42 P6L sing 454 n n C41 H411 P6L sing 455 n n C41 H412 P6L sing 456 n n C42 C43 P6L sing 457 n n C42 H421 P6L sing 458 n n C42 H422 P6L sing 459 n n C43 C44 P6L sing 460 n n C43 H431 P6L sing 461 n n C43 H432 P6L sing 462 n n C44 H441 P6L sing 463 n n C44 H442 P6L sing 464 n n C44 H443 P6L sing 465 n n C45 C46 P6L sing 466 n n C45 H451 P6L sing 467 n n C45 H452 P6L sing 468 n n C46 C47 P6L sing 469 n n C46 H461 P6L sing 470 n n C46 H462 P6L sing 471 n n C47 C48 P6L sing 472 n n C47 H471 P6L sing 473 n n C47 H472 P6L sing 474 n n C48 C49 P6L sing 475 n n C48 H481 P6L sing 476 n n C48 H482 P6L sing 477 n n C49 H491 P6L sing 478 n n C49 H492 P6L sing 479 n n C49 H493 P6L sing 480 n n C50 O51 P6L sing 481 n n C50 H501 P6L sing 482 n n C50 H502 P6L sing 483 n n O51 H51 P6L sing 484 n n # _atom_sites.entry_id 5O5E _atom_sites.fract_transf_matrix[1][1] 0.009795 _atom_sites.fract_transf_matrix[1][2] 0.005655 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011311 _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] 0.004166 _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 P6L A 1 501 1 P6L P6L . C 3 9LH A 1 502 1 9LH TUN . D 4 UNL A 1 503 1 UNL CDL . E 5 HOH A 1 601 10 HOH HOH . E 5 HOH A 2 602 4 HOH HOH . E 5 HOH A 3 603 5 HOH HOH . E 5 HOH A 4 604 6 HOH HOH . E 5 HOH A 5 605 1 HOH HOH . E 5 HOH A 6 606 8 HOH HOH . E 5 HOH A 7 607 7 HOH HOH . E 5 HOH A 8 608 3 HOH HOH . E 5 HOH A 9 609 11 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 O O4 P6L . . . B 2 37.466 47.355 111.404 1 207.19 ? O4 P6L 501 A 1 HETATM 2 C C5 P6L . . . B 2 37.095 46.992 110.029 1 210.38 ? C5 P6L 501 A 1 HETATM 3 C C6 P6L . . . B 2 36.32 45.703 110.059 1 210.38 ? C6 P6L 501 A 1 HETATM 4 C C7 P6L . . . B 2 36.327 48.103 109.356 1 213.26 ? C7 P6L 501 A 1 HETATM 5 O O9 P6L . . . B 2 35.257 48.576 110.204 1 216.2 ? O9 P6L 501 A 1 HETATM 6 O O10 P6L . . . B 2 34.599 50.525 108.638 1 219.37 ? O10 P6L 501 A 1 HETATM 7 P P11 P6L . . . B 2 34.623 50.067 110.048 1 218.77 ? P11 P6L 501 A 1 HETATM 8 O O12 P6L . . . B 2 33.135 49.98 110.66 1 218.81 ? O12 P6L 501 A 1 HETATM 9 O O13 P6L . . . B 2 35.418 50.989 110.975 1 219.17 ? O13 P6L 501 A 1 HETATM 10 C C14 P6L . . . B 2 38.662 47.945 111.625 1 202.87 ? C14 P6L 501 A 1 HETATM 11 O O15 P6L . . . B 2 39.372 48.375 110.752 1 203.76 ? O15 P6L 501 A 1 HETATM 12 C C18 P6L . . . B 2 38.981 47.995 113.093 1 197.39 ? C18 P6L 501 A 1 HETATM 13 C C19 P6L . . . B 2 40.454 48.246 113.413 1 192.28 ? C19 P6L 501 A 1 HETATM 14 C C20 P6L . . . B 2 41.35 47.037 113.189 1 187.65 ? C20 P6L 501 A 1 HETATM 15 C C21 P6L . . . B 2 42.818 47.286 113.531 1 184.34 ? C21 P6L 501 A 1 HETATM 16 C C22 P6L . . . B 2 43.466 46.076 114.144 1 181.69 ? C22 P6L 501 A 1 HETATM 17 C C23 P6L . . . B 2 44.73 45.913 114.51 1 179.54 ? C23 P6L 501 A 1 HETATM 18 C C24 P6L . . . B 2 45.869 46.891 114.395 1 178.24 ? C24 P6L 501 A 1 HETATM 19 C C25 P6L . . . B 2 47.239 46.226 114.557 1 177.98 ? C25 P6L 501 A 1 HETATM 20 C C26 P6L . . . B 2 47.687 45.375 113.37 1 178.3 ? C26 P6L 501 A 1 HETATM 21 C C37 P6L . . . B 2 48.893 44.469 113.626 1 178.44 ? C37 P6L 501 A 1 HETATM 22 C C45 P6L . . . B 2 50.27 45.06 113.316 1 178.63 ? C45 P6L 501 A 1 HETATM 23 C C46 P6L . . . B 2 50.906 45.876 114.442 1 178.77 ? C46 P6L 501 A 1 HETATM 24 C C47 P6L . . . B 2 52.384 45.578 114.694 1 178.66 ? C47 P6L 501 A 1 HETATM 25 C C48 P6L . . . B 2 53.373 46.326 113.802 1 178.36 ? C48 P6L 501 A 1 HETATM 26 C C49 P6L . . . B 2 53.644 47.749 114.258 1 178.36 ? C49 P6L 501 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 40 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 1255 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 26 #