data_8JF2 # _model_server_result.job_id Qycha_JJAFZoP6eq0owYdg _model_server_result.datetime_utc '2025-03-06 03:46:44' _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 8jf2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":601}' # _entry.id 8JF2 # _exptl.entry_id 8JF2 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 751.023 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE' _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 90 _cell.angle_gamma 90 _cell.entry_id 8JF2 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8JF2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _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,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,JA,KA,LA,MA,NA,OA _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 ? _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 I N N ? 3 O N N ? 3 X N N ? 3 Y N N ? 3 GA N N ? 3 HA N N # _chem_comp.formula 'C40 H79 O10 P' _chem_comp.formula_weight 751.023 _chem_comp.id PGT _chem_comp.mon_nstd_flag . _chem_comp.name '(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'PHOSPHATIDYLGLYCEROL;1-PALMITOYL-2-OLEOYL-SN-GLYCERO-3-[PHOSPHO-RAC-(1-GLYCEROL)](SODIUM SALT)' # 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 C48 C47 PGT sing 436 n n C48 H481 PGT sing 437 n n C48 H482 PGT sing 438 n n C48 H483 PGT sing 439 n n C47 C46 PGT sing 440 n n C47 H471 PGT sing 441 n n C47 H472 PGT sing 442 n n C46 C45 PGT sing 443 n n C46 H461 PGT sing 444 n n C46 H462 PGT sing 445 n n C45 C44 PGT sing 446 n n C45 H451 PGT sing 447 n n C45 H452 PGT sing 448 n n C44 C43 PGT sing 449 n n C44 H441 PGT sing 450 n n C44 H442 PGT sing 451 n n C43 C42 PGT sing 452 n n C43 H431 PGT sing 453 n n C43 H432 PGT sing 454 n n C42 C41 PGT sing 455 n n C42 H421 PGT sing 456 n n C42 H422 PGT sing 457 n n C41 C40 PGT sing 458 n n C41 H411 PGT sing 459 n n C41 H412 PGT sing 460 n n C40 C39 PGT sing 461 n n C40 H401 PGT sing 462 n n C40 H402 PGT sing 463 n n C39 C38 PGT sing 464 n n C39 H391 PGT sing 465 n n C39 H392 PGT sing 466 n n C38 C37 PGT sing 467 n n C38 H381 PGT sing 468 n n C38 H382 PGT sing 469 n n C37 C36 PGT sing 470 n n C37 H371 PGT sing 471 n n C37 H372 PGT sing 472 n n C36 C35 PGT sing 473 n n C36 H361 PGT sing 474 n n C36 H362 PGT sing 475 n n C35 C34 PGT sing 476 n n C35 H351 PGT sing 477 n n C35 H352 PGT sing 478 n n C34 C33 PGT sing 479 n n C34 H341 PGT sing 480 n n C34 H342 PGT sing 481 n n C33 C32 PGT sing 482 n n C33 H331 PGT sing 483 n n C33 H332 PGT sing 484 n n C32 C31 PGT sing 485 n n C32 H321 PGT sing 486 n n C32 H322 PGT sing 487 n n C31 O31 PGT doub 488 n n C31 O2 PGT sing 489 n n O2 C2 PGT sing 490 n n C2 C1 PGT sing 491 n n C2 C3 PGT sing 492 n n C2 H2 PGT sing 493 n n C1 O3P PGT sing 494 n n C1 H11 PGT sing 495 n n C1 H12 PGT sing 496 n n O3P P PGT sing 497 n n P O1P PGT doub 498 n n P O2P PGT sing 499 n n P O4P PGT sing 500 n n O2P HO2P PGT sing 501 n n O4P C4 PGT sing 502 n n C4 C5 PGT sing 503 n n C4 H41 PGT sing 504 n n C4 H42 PGT sing 505 n n C5 O5 PGT sing 506 n n C5 C6 PGT sing 507 n n C5 H5 PGT sing 508 n n O5 HO5 PGT sing 509 n n C6 O6 PGT sing 510 n n C6 H61 PGT sing 511 n n C6 H62 PGT sing 512 n n O6 HO6 PGT sing 513 n n C3 O3 PGT sing 514 n n C3 H31 PGT sing 515 n n C3 H32 PGT sing 516 n n O3 C11 PGT sing 517 n n C11 O11 PGT doub 518 n n C11 C12 PGT sing 519 n n C12 C13 PGT sing 520 n n C12 H121 PGT sing 521 n n C12 H122 PGT sing 522 n n C13 C14 PGT sing 523 n n C13 H131 PGT sing 524 n n C13 H132 PGT sing 525 n n C14 C15 PGT sing 526 n n C14 H141 PGT sing 527 n n C14 H142 PGT sing 528 n n C15 C16 PGT sing 529 n n C15 H151 PGT sing 530 n n C15 H152 PGT sing 531 n n C16 C17 PGT sing 532 n n C16 H161 PGT sing 533 n n C16 H162 PGT sing 534 n n C17 C18 PGT sing 535 n n C17 H171 PGT sing 536 n n C17 H172 PGT sing 537 n n C18 C19 PGT sing 538 n n C18 H181 PGT sing 539 n n C18 H182 PGT sing 540 n n C19 C20 PGT sing 541 n n C19 H191 PGT sing 542 n n C19 H192 PGT sing 543 n n C20 C21 PGT sing 544 n n C20 H201 PGT sing 545 n n C20 H202 PGT sing 546 n n C21 C22 PGT sing 547 n n C21 H211 PGT sing 548 n n C21 H212 PGT sing 549 n n C22 C23 PGT sing 550 n n C22 H221 PGT sing 551 n n C22 H222 PGT sing 552 n n C23 C24 PGT sing 553 n n C23 H231 PGT sing 554 n n C23 H232 PGT sing 555 n n C24 C25 PGT sing 556 n n C24 H241 PGT sing 557 n n C24 H242 PGT sing 558 n n C25 C26 PGT sing 559 n n C25 H251 PGT sing 560 n n C25 H252 PGT sing 561 n n C26 H261 PGT sing 562 n n C26 H262 PGT sing 563 n n C26 H263 PGT sing 564 n n # _atom_sites.entry_id 8JF2 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 I 3 PGT A 1 601 601 PGT PGT . J 4 LMT A 1 602 5 LMT LMT . K 4 LMT A 1 603 17 LMT LMT . L 4 LMT A 1 604 18 LMT LMT . M 4 LMT A 1 605 19 LMT LMT . N 5 DGA B 1 501 603 DGA DGA . O 3 PGT B 1 502 502 PGT PGT . P 4 LMT B 1 503 2 LMT LMT . Q 4 LMT B 1 504 4 LMT LMT . R 4 LMT B 1 505 11 LMT LMT . S 4 LMT B 1 506 12 LMT LMT . T 4 LMT B 1 507 13 LMT LMT . U 4 LMT B 1 508 14 LMT LMT . V 4 LMT B 1 509 21 LMT LMT . W 4 LMT B 1 510 23 LMT LMT . X 3 PGT B 1 511 114 PGT PGT . Y 3 PGT C 1 501 502 PGT PGT . Z 5 DGA C 1 502 505 DGA DGA . AA 4 LMT C 1 503 9 LMT LMT . BA 4 LMT C 1 504 10 LMT LMT . CA 4 LMT C 1 505 16 LMT LMT . DA 4 LMT C 1 506 20 LMT LMT . EA 4 LMT C 1 507 22 LMT LMT . FA 4 LMT C 1 508 25 LMT LMT . GA 3 PGT C 1 509 115 PGT PGT . HA 3 PGT D 1 601 601 PGT PGT . IA 4 LMT D 1 602 1 LMT LMT . JA 4 LMT D 1 603 3 LMT LMT . KA 4 LMT D 1 604 6 LMT LMT . LA 4 LMT D 1 605 7 LMT LMT . MA 4 LMT D 1 606 8 LMT LMT . NA 4 LMT D 1 607 15 LMT LMT . OA 4 LMT D 1 608 24 LMT LMT . # 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 C48 PGT . . . I 3 102.08 195.389 120.549 1 118.63 ? C48 PGT 601 A 1 HETATM 2 C C47 PGT . . . I 3 102.608 194.876 121.881 1 118.63 ? C47 PGT 601 A 1 HETATM 3 C C46 PGT . . . I 3 103.324 193.537 121.757 1 118.63 ? C46 PGT 601 A 1 HETATM 4 C C45 PGT . . . I 3 104.513 193.579 120.807 1 118.63 ? C45 PGT 601 A 1 HETATM 5 C C44 PGT . . . I 3 105.455 192.393 120.974 1 118.63 ? C44 PGT 601 A 1 HETATM 6 C C43 PGT . . . I 3 106.606 192.394 119.976 1 118.63 ? C43 PGT 601 A 1 HETATM 7 C C42 PGT . . . I 3 107.748 191.471 120.376 1 118.63 ? C42 PGT 601 A 1 HETATM 8 C C41 PGT . . . I 3 107.391 189.994 120.281 1 118.63 ? C41 PGT 601 A 1 HETATM 9 C C40 PGT . . . I 3 108.432 189.096 120.934 1 118.63 ? C40 PGT 601 A 1 HETATM 10 C C39 PGT . . . I 3 108.492 189.269 122.443 1 118.63 ? C39 PGT 601 A 1 HETATM 11 C C38 PGT . . . I 3 109.65 188.527 123.095 1 118.63 ? C38 PGT 601 A 1 HETATM 12 C C37 PGT . . . I 3 109.527 188.451 124.61 1 118.63 ? C37 PGT 601 A 1 HETATM 13 C C36 PGT . . . I 3 109.432 187.028 125.147 1 118.63 ? C36 PGT 601 A 1 HETATM 14 C C35 PGT . . . I 3 110.731 186.245 125.021 1 118.63 ? C35 PGT 601 A 1 HETATM 15 C C34 PGT . . . I 3 110.605 184.784 125.434 1 118.63 ? C34 PGT 601 A 1 HETATM 16 C C33 PGT . . . I 3 110.442 184.593 126.936 1 118.63 ? C33 PGT 601 A 1 HETATM 17 C C32 PGT . . . I 3 110.609 183.14 127.346 1 118.63 ? C32 PGT 601 A 1 HETATM 18 C C31 PGT . . . I 3 112.034 182.678 127.262 1 118.63 ? C31 PGT 601 A 1 HETATM 19 O O31 PGT . . . I 3 112.954 183.379 126.932 1 118.63 ? O31 PGT 601 A 1 HETATM 20 O O2 PGT . . . I 3 112.16 181.393 127.592 1 118.63 ? O2 PGT 601 A 1 HETATM 21 C C2 PGT . . . I 3 113.242 180.954 128.432 1 118.63 ? C2 PGT 601 A 1 HETATM 22 C C1 PGT . . . I 3 113.47 181.893 129.609 1 118.63 ? C1 PGT 601 A 1 HETATM 23 O O3P PGT . . . I 3 114.775 181.798 130.13 1 118.63 ? O3P PGT 601 A 1 HETATM 24 P P PGT . . . I 3 114.951 181.477 131.728 1 118.63 ? P PGT 601 A 1 HETATM 25 O O1P PGT . . . I 3 116.261 180.794 131.982 1 118.63 ? O1P PGT 601 A 1 HETATM 26 O O2P PGT . . . I 3 113.695 180.89 132.297 1 118.63 ? O2P PGT 601 A 1 HETATM 27 O O4P PGT . . . I 3 115.079 183.065 132.107 1 118.63 ? O4P PGT 601 A 1 HETATM 28 C C4 PGT . . . I 3 116.196 183.459 132.869 1 118.63 ? C4 PGT 601 A 1 HETATM 29 C C5 PGT . . . I 3 116.02 184.923 133.24 1 118.63 ? C5 PGT 601 A 1 HETATM 30 O O5 PGT . . . I 3 115.387 185.658 132.219 1 118.63 ? O5 PGT 601 A 1 HETATM 31 C C6 PGT . . . I 3 117.357 185.523 133.641 1 118.63 ? C6 PGT 601 A 1 HETATM 32 O O6 PGT . . . I 3 117.584 186.687 132.887 1 118.63 ? O6 PGT 601 A 1 HETATM 33 C C3 PGT . . . I 3 114.466 180.691 127.574 1 118.63 ? C3 PGT 601 A 1 HETATM 34 O O3 PGT . . . I 3 114.123 180.629 126.196 1 118.63 ? O3 PGT 601 A 1 HETATM 35 C C11 PGT . . . I 3 114.955 180.007 125.369 1 118.63 ? C11 PGT 601 A 1 HETATM 36 O O11 PGT . . . I 3 115.922 179.39 125.741 1 118.63 ? O11 PGT 601 A 1 HETATM 37 C C12 PGT . . . I 3 114.532 180.177 123.937 1 118.63 ? C12 PGT 601 A 1 HETATM 38 C C13 PGT . . . I 3 114.305 181.635 123.572 1 118.63 ? C13 PGT 601 A 1 HETATM 39 C C14 PGT . . . I 3 113.495 181.805 122.296 1 118.63 ? C14 PGT 601 A 1 HETATM 40 C C15 PGT . . . I 3 113.755 183.134 121.599 1 118.63 ? C15 PGT 601 A 1 HETATM 41 C C16 PGT . . . I 3 113.404 184.343 122.455 1 118.63 ? C16 PGT 601 A 1 HETATM 42 C C17 PGT . . . I 3 114.5 185.401 122.511 1 118.63 ? C17 PGT 601 A 1 HETATM 43 C C18 PGT . . . I 3 115.677 185.006 123.392 1 118.63 ? C18 PGT 601 A 1 HETATM 44 C C19 PGT . . . I 3 115.6 185.559 124.809 1 118.63 ? C19 PGT 601 A 1 HETATM 45 C C20 PGT . . . I 3 116.162 184.598 125.848 1 118.63 ? C20 PGT 601 A 1 HETATM 46 C C21 PGT . . . I 3 116.525 185.265 127.168 1 118.63 ? C21 PGT 601 A 1 HETATM 47 C C22 PGT . . . I 3 115.411 186.129 127.744 1 118.63 ? C22 PGT 601 A 1 HETATM 48 C C23 PGT . . . I 3 115.931 187.28 128.594 1 118.63 ? C23 PGT 601 A 1 HETATM 49 C C24 PGT . . . I 3 114.889 188.359 128.848 1 118.63 ? C24 PGT 601 A 1 HETATM 50 C C25 PGT . . . I 3 115.476 189.657 129.387 1 118.63 ? C25 PGT 601 A 1 HETATM 51 C C26 PGT . . . I 3 115.92 190.606 128.284 1 118.63 ? C26 PGT 601 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 368 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 51 #