data_8JES # _model_server_result.job_id MeI4NdwL1nBcWVpn1kKioQ _model_server_result.datetime_utc '2025-03-06 03:54:29' _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 8jes # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"JA","auth_seq_id":502}' # _entry.id 8JES # _exptl.entry_id 8JES _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 751.023 _entity.id 2 _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 8JES _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8JES _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,PA,QA,RA,SA,TA,UA _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 ? 2 E N N ? 2 M N N ? 2 N N N ? 2 AA N N ? 2 HA N N ? 2 JA 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 8JES _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 E 2 PGT A 1 601 601 PGT PGT . F 3 LMT A 1 602 602 LMT LMT . G 4 DGA A 1 603 603 DGA DGA . H 3 LMT A 1 604 604 LMT LMT . I 3 LMT A 1 605 605 LMT LMT . J 3 LMT A 1 606 701 LMT LMT . K 3 LMT A 1 607 5 LMT LMT . L 3 LMT A 1 608 7 LMT LMT . M 2 PGT A 1 609 14 PGT PGT . N 2 PGT B 1 501 502 PGT PGT . O 3 LMT B 1 502 503 LMT LMT . P 3 LMT B 1 503 505 LMT LMT . Q 3 LMT B 1 504 506 LMT LMT . R 3 LMT B 1 505 509 LMT LMT . S 3 LMT B 1 506 510 LMT LMT . T 3 LMT B 1 507 601 LMT LMT . U 3 LMT B 1 508 602 LMT LMT . V 3 LMT B 1 509 2 LMT LMT . W 3 LMT B 1 510 4 LMT LMT . X 3 LMT B 1 511 11 LMT LMT . Y 3 LMT B 1 512 12 LMT LMT . Z 3 LMT B 1 513 13 LMT LMT . AA 2 PGT C 1 501 502 PGT PGT . BA 3 LMT C 1 502 503 LMT LMT . CA 3 LMT C 1 503 504 LMT LMT . DA 3 LMT C 1 504 506 LMT LMT . EA 3 LMT C 1 505 601 LMT LMT . FA 3 LMT C 1 506 9 LMT LMT . GA 3 LMT C 1 507 10 LMT LMT . HA 2 PGT C 1 508 15 PGT PGT . IA 4 DGA D 1 501 505 DGA DGA . JA 2 PGT D 1 502 601 PGT PGT . KA 3 LMT D 1 503 701 LMT LMT . LA 3 LMT D 1 504 702 LMT LMT . MA 3 LMT D 1 505 705 LMT LMT . NA 3 LMT D 1 506 709 LMT LMT . OA 3 LMT D 1 507 801 LMT LMT . PA 3 LMT D 1 508 802 LMT LMT . QA 3 LMT D 1 509 1 LMT LMT . RA 3 LMT D 1 510 3 LMT LMT . SA 3 LMT D 1 511 6 LMT LMT . TA 3 LMT D 1 512 8 LMT LMT . UA 3 LMT D 1 513 16 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 . . . JA 2 76.756 156.887 144.118 1 153.64 ? C48 PGT 502 D 1 HETATM 2 C C47 PGT . . . JA 2 76.82 156.26 142.732 1 155.48 ? C47 PGT 502 D 1 HETATM 3 C C46 PGT . . . JA 2 78.209 156.326 142.11 1 153.79 ? C46 PGT 502 D 1 HETATM 4 C C45 PGT . . . JA 2 78.207 156.044 140.612 1 156.52 ? C45 PGT 502 D 1 HETATM 5 C C44 PGT . . . JA 2 79.59 156.089 139.972 1 159.27 ? C44 PGT 502 D 1 HETATM 6 C C43 PGT . . . JA 2 80.449 154.873 140.293 1 158.06 ? C43 PGT 502 D 1 HETATM 7 C C42 PGT . . . JA 2 81.26 154.366 139.105 1 156.79 ? C42 PGT 502 D 1 HETATM 8 C C41 PGT . . . JA 2 82.219 155.404 138.537 1 156.81 ? C41 PGT 502 D 1 HETATM 9 C C40 PGT . . . JA 2 83.185 154.843 137.499 1 157.75 ? C40 PGT 502 D 1 HETATM 10 C C39 PGT . . . JA 2 84.117 155.898 136.919 1 156.57 ? C39 PGT 502 D 1 HETATM 11 C C38 PGT . . . JA 2 85.156 155.341 135.954 1 152.39 ? C38 PGT 502 D 1 HETATM 12 C C37 PGT . . . JA 2 86.39 154.787 136.652 1 153.03 ? C37 PGT 502 D 1 HETATM 13 C C36 PGT . . . JA 2 87.552 154.536 135.7 1 152.23 ? C36 PGT 502 D 1 HETATM 14 C C35 PGT . . . JA 2 87.172 153.657 134.517 1 152.9 ? C35 PGT 502 D 1 HETATM 15 C C34 PGT . . . JA 2 88.196 153.69 133.392 1 156.23 ? C34 PGT 502 D 1 HETATM 16 C C33 PGT . . . JA 2 87.759 152.891 132.172 1 154.51 ? C33 PGT 502 D 1 HETATM 17 C C32 PGT . . . JA 2 87.592 151.415 132.488 1 159.78 ? C32 PGT 502 D 1 HETATM 18 C C31 PGT . . . JA 2 87.935 150.514 131.334 1 156.89 ? C31 PGT 502 D 1 HETATM 19 O O31 PGT . . . JA 2 87.271 150.392 130.336 1 152.64 ? O31 PGT 502 D 1 HETATM 20 O O2 PGT . . . JA 2 89.075 149.859 131.555 1 160.83 ? O2 PGT 502 D 1 HETATM 21 C C2 PGT . . . JA 2 90.154 149.981 130.618 1 154.15 ? C2 PGT 502 D 1 HETATM 22 C C1 PGT . . . JA 2 90.09 148.887 129.568 1 148.07 ? C1 PGT 502 D 1 HETATM 23 O O3P PGT . . . JA 2 89.205 149.227 128.53 1 150.36 ? O3P PGT 502 D 1 HETATM 24 P P PGT . . . JA 2 89.83 149.961 127.208 1 170.97 ? P PGT 502 D 1 HETATM 25 O O1P PGT . . . JA 2 90.705 148.992 126.479 1 156.29 ? O1P PGT 502 D 1 HETATM 26 O O2P PGT . . . JA 2 90.375 151.312 127.554 1 159.89 ? O2P PGT 502 D 1 HETATM 27 O O4P PGT . . . JA 2 88.372 150.084 126.463 1 167.86 ? O4P PGT 502 D 1 HETATM 28 C C4 PGT . . . JA 2 87.371 150.863 127.079 1 161.8 ? C4 PGT 502 D 1 HETATM 29 C C5 PGT . . . JA 2 86.874 151.912 126.091 1 156.28 ? C5 PGT 502 D 1 HETATM 30 O O5 PGT . . . JA 2 85.751 152.617 126.57 1 154.21 ? O5 PGT 502 D 1 HETATM 31 C C6 PGT . . . JA 2 86.614 151.272 124.738 1 150.87 ? C6 PGT 502 D 1 HETATM 32 O O6 PGT . . . JA 2 85.406 151.775 124.223 1 153.16 ? O6 PGT 502 D 1 HETATM 33 C C3 PGT . . . JA 2 91.448 150.047 131.399 1 152.91 ? C3 PGT 502 D 1 HETATM 34 O O3 PGT . . . JA 2 91.774 148.769 131.924 1 142.3 ? O3 PGT 502 D 1 HETATM 35 C C11 PGT . . . JA 2 91.302 148.469 133.126 1 156.29 ? C11 PGT 502 D 1 HETATM 36 O O11 PGT . . . JA 2 90.358 147.738 133.294 1 163.51 ? O11 PGT 502 D 1 HETATM 37 C C12 PGT . . . JA 2 92.078 149.144 134.221 1 153.56 ? C12 PGT 502 D 1 HETATM 38 C C13 PGT . . . JA 2 91.218 150.02 135.119 1 150.18 ? C13 PGT 502 D 1 HETATM 39 C C14 PGT . . . JA 2 90.428 149.217 136.143 1 145.61 ? C14 PGT 502 D 1 HETATM 40 C C15 PGT . . . JA 2 90.469 149.817 137.541 1 149.7 ? C15 PGT 502 D 1 HETATM 41 C C16 PGT . . . JA 2 89.46 150.939 137.753 1 154.23 ? C16 PGT 502 D 1 HETATM 42 C C17 PGT . . . JA 2 89.589 151.607 139.118 1 152.24 ? C17 PGT 502 D 1 HETATM 43 C C18 PGT . . . JA 2 88.411 152.503 139.475 1 150.7 ? C18 PGT 502 D 1 HETATM 44 C C19 PGT . . . JA 2 87.787 152.168 140.823 1 148.11 ? C19 PGT 502 D 1 HETATM 45 C C20 PGT . . . JA 2 86.479 152.904 141.083 1 155 ? C20 PGT 502 D 1 HETATM 46 C C21 PGT . . . JA 2 85.512 152.117 141.958 1 156.44 ? C21 PGT 502 D 1 HETATM 47 C C22 PGT . . . JA 2 84.146 152.778 142.095 1 156.82 ? C22 PGT 502 D 1 HETATM 48 C C23 PGT . . . JA 2 84.093 153.829 143.198 1 158.16 ? C23 PGT 502 D 1 HETATM 49 C C24 PGT . . . JA 2 84.18 153.241 144.6 1 155.36 ? C24 PGT 502 D 1 HETATM 50 C C25 PGT . . . JA 2 84.198 154.297 145.698 1 150.67 ? C25 PGT 502 D 1 HETATM 51 C C26 PGT . . . JA 2 82.958 155.178 145.69 1 149.55 ? C26 PGT 502 D 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 246 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 51 #