data_8JES
#
_model_server_result.job_id            ymohK12LR25jAzz5N_rQHg 
_model_server_result.datetime_utc      '2025-03-06 03:48:22' 
_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":"AA","auth_seq_id":501}' 
#
_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 . . . AA 2 157.745 184.154 146.787 1 151.74 ? C48 PGT 501 C 1 
HETATM 2 C C47 PGT . . . AA 2 158.439 183.054 145.995 1 150.47 ? C47 PGT 501 C 1 
HETATM 3 C C46 PGT . . . AA 2 157.486 182.312 145.067 1 147.43 ? C46 PGT 501 C 1 
HETATM 4 C C45 PGT . . . AA 2 156.951 183.181 143.936 1 151.1 ? C45 PGT 501 C 1 
HETATM 5 C C44 PGT . . . AA 2 155.767 182.555 143.209 1 155.87 ? C44 PGT 501 C 1 
HETATM 6 C C43 PGT . . . AA 2 155.389 183.281 141.923 1 152.68 ? C43 PGT 501 C 1 
HETATM 7 C C42 PGT . . . AA 2 154.237 182.622 141.174 1 145.16 ? C42 PGT 501 C 1 
HETATM 8 C C41 PGT . . . AA 2 154.417 181.118 141.003 1 147 ? C41 PGT 501 C 1 
HETATM 9 C C40 PGT . . . AA 2 155.565 180.745 140.073 1 150.84 ? C40 PGT 501 C 1 
HETATM 10 C C39 PGT . . . AA 2 155.885 179.256 140.074 1 150.09 ? C39 PGT 501 C 1 
HETATM 11 C C38 PGT . . . AA 2 154.697 178.374 139.711 1 150.99 ? C38 PGT 501 C 1 
HETATM 12 C C37 PGT . . . AA 2 154.386 178.339 138.22 1 151.3 ? C37 PGT 501 C 1 
HETATM 13 C C36 PGT . . . AA 2 153.141 179.129 137.835 1 152.69 ? C36 PGT 501 C 1 
HETATM 14 C C35 PGT . . . AA 2 152.433 178.569 136.609 1 148.39 ? C35 PGT 501 C 1 
HETATM 15 C C34 PGT . . . AA 2 151.554 177.364 136.916 1 145.4 ? C34 PGT 501 C 1 
HETATM 16 C C33 PGT . . . AA 2 151.192 176.58 135.663 1 145 ? C33 PGT 501 C 1 
HETATM 17 C C32 PGT . . . AA 2 150.463 177.439 134.645 1 151.58 ? C32 PGT 501 C 1 
HETATM 18 C C31 PGT . . . AA 2 150.475 176.857 133.261 1 152.78 ? C31 PGT 501 C 1 
HETATM 19 O O31 PGT . . . AA 2 149.736 175.994 132.868 1 150.71 ? O31 PGT 501 C 1 
HETATM 20 O O2 PGT . . . AA 2 151.415 177.42 132.507 1 155.68 ? O2 PGT 501 C 1 
HETATM 21 C C2 PGT . . . AA 2 151.144 178.676 131.875 1 153.75 ? C2 PGT 501 C 1 
HETATM 22 C C1 PGT . . . AA 2 150.361 178.479 130.591 1 149.16 ? C1 PGT 501 C 1 
HETATM 23 O O3P PGT . . . AA 2 150.669 179.462 129.632 1 154.44 ? O3P PGT 501 C 1 
HETATM 24 P P PGT . . . AA 2 151.492 178.997 128.296 1 171.28 ? P PGT 501 C 1 
HETATM 25 O O1P PGT . . . AA 2 152.399 177.859 128.652 1 158.67 ? O1P PGT 501 C 1 
HETATM 26 O O2P PGT . . . AA 2 150.578 178.866 127.118 1 153.98 ? O2P PGT 501 C 1 
HETATM 27 O O4P PGT . . . AA 2 152.347 180.395 128.232 1 160.9 ? O4P PGT 501 C 1 
HETATM 28 C C4 PGT . . . AA 2 153.163 180.614 127.103 1 158.77 ? C4 PGT 501 C 1 
HETATM 29 C C5 PGT . . . AA 2 154.189 181.688 127.439 1 156.07 ? C5 PGT 501 C 1 
HETATM 30 O O5 PGT . . . AA 2 154.27 181.945 128.823 1 154.71 ? O5 PGT 501 C 1 
HETATM 31 C C6 PGT . . . AA 2 153.902 182.942 126.63 1 153.1 ? C6 PGT 501 C 1 
HETATM 32 O O6 PGT . . . AA 2 154.021 182.638 125.262 1 149.23 ? O6 PGT 501 C 1 
HETATM 33 C C3 PGT . . . AA 2 152.462 179.399 131.709 1 155.7 ? C3 PGT 501 C 1 
HETATM 34 O O3 PGT . . . AA 2 152.425 180.642 132.399 1 159.41 ? O3 PGT 501 C 1 
HETATM 35 C C11 PGT . . . AA 2 153.434 181.49 132.234 1 156.3 ? C11 PGT 501 C 1 
HETATM 36 O O11 PGT . . . AA 2 153.289 182.619 131.835 1 158.52 ? O11 PGT 501 C 1 
HETATM 37 C C12 PGT . . . AA 2 154.752 180.874 132.607 1 150.96 ? C12 PGT 501 C 1 
HETATM 38 C C13 PGT . . . AA 2 154.883 180.614 134.1 1 152.84 ? C13 PGT 501 C 1 
HETATM 39 C C14 PGT . . . AA 2 155.588 179.297 134.393 1 154.46 ? C14 PGT 501 C 1 
HETATM 40 C C15 PGT . . . AA 2 157.049 179.471 134.787 1 154.54 ? C15 PGT 501 C 1 
HETATM 41 C C16 PGT . . . AA 2 157.219 180.078 136.173 1 152.04 ? C16 PGT 501 C 1 
HETATM 42 C C17 PGT . . . AA 2 157.875 181.452 136.148 1 151.63 ? C17 PGT 501 C 1 
HETATM 43 C C18 PGT . . . AA 2 157.892 182.14 137.506 1 150.98 ? C18 PGT 501 C 1 
HETATM 44 C C19 PGT . . . AA 2 158.458 183.553 137.448 1 149.97 ? C19 PGT 501 C 1 
HETATM 45 C C20 PGT . . . AA 2 158.247 184.344 138.731 1 150.16 ? C20 PGT 501 C 1 
HETATM 46 C C21 PGT . . . AA 2 158.449 185.844 138.549 1 151.19 ? C21 PGT 501 C 1 
HETATM 47 C C22 PGT . . . AA 2 157.802 186.678 139.648 1 151.62 ? C22 PGT 501 C 1 
HETATM 48 C C23 PGT . . . AA 2 158.647 186.779 140.911 1 150.56 ? C23 PGT 501 C 1 
HETATM 49 C C24 PGT . . . AA 2 159.878 187.659 140.741 1 151.3 ? C24 PGT 501 C 1 
HETATM 50 C C25 PGT . . . AA 2 160.7 187.802 142.015 1 152.32 ? C25 PGT 501 C 1 
HETATM 51 C C26 PGT . . . AA 2 161.866 188.767 141.859 1 150.81 ? C26 PGT 501 C 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    36 
_model_server_stats.query_time_ms           275 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           51 
#