data_8JES
#
_model_server_result.job_id            HU6wET_dM1oW5TpzYaCIRg 
_model_server_result.datetime_utc      '2025-03-06 03:21:49' 
_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":"N","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 . . . N 2 188.227 108.638 143.533 1 112.84 ? C48 PGT 501 B 1 
HETATM 2 C C47 PGT . . . N 2 188.735 109.371 142.299 1 114.64 ? C47 PGT 501 B 1 
HETATM 3 C C46 PGT . . . N 2 187.834 109.187 141.083 1 113.55 ? C46 PGT 501 B 1 
HETATM 4 C C45 PGT . . . N 2 186.462 109.833 141.24 1 114.51 ? C45 PGT 501 B 1 
HETATM 5 C C44 PGT . . . N 2 185.694 109.945 139.927 1 117.9 ? C44 PGT 501 B 1 
HETATM 6 C C43 PGT . . . N 2 184.543 110.942 139.988 1 116.55 ? C43 PGT 501 B 1 
HETATM 7 C C42 PGT . . . N 2 183.953 111.285 138.626 1 117.23 ? C42 PGT 501 B 1 
HETATM 8 C C41 PGT . . . N 2 183.109 110.165 138.032 1 115.66 ? C41 PGT 501 B 1 
HETATM 9 C C40 PGT . . . N 2 182.035 110.662 137.071 1 114.28 ? C40 PGT 501 B 1 
HETATM 10 C C39 PGT . . . N 2 180.887 109.677 136.899 1 115.55 ? C39 PGT 501 B 1 
HETATM 11 C C38 PGT . . . N 2 179.521 110.346 136.798 1 108.33 ? C38 PGT 501 B 1 
HETATM 12 C C37 PGT . . . N 2 179.224 110.908 135.416 1 109.23 ? C37 PGT 501 B 1 
HETATM 13 C C36 PGT . . . N 2 177.889 111.639 135.344 1 108.79 ? C36 PGT 501 B 1 
HETATM 14 C C35 PGT . . . N 2 177.455 111.943 133.917 1 110.91 ? C35 PGT 501 B 1 
HETATM 15 C C34 PGT . . . N 2 178.517 112.68 133.113 1 114.71 ? C34 PGT 501 B 1 
HETATM 16 C C33 PGT . . . N 2 178.19 112.744 131.627 1 112.84 ? C33 PGT 501 B 1 
HETATM 17 C C32 PGT . . . N 2 176.999 113.643 131.34 1 116.15 ? C32 PGT 501 B 1 
HETATM 18 C C31 PGT . . . N 2 177.371 115.078 131.086 1 115.43 ? C31 PGT 501 B 1 
HETATM 19 O O31 PGT . . . N 2 178.481 115.464 130.821 1 111.06 ? O31 PGT 501 B 1 
HETATM 20 O O2 PGT . . . N 2 176.317 115.885 131.192 1 119.52 ? O2 PGT 501 B 1 
HETATM 21 C C2 PGT . . . N 2 175.167 115.656 130.367 1 114.62 ? C2 PGT 501 B 1 
HETATM 22 C C1 PGT . . . N 2 175.145 116.604 129.182 1 104.93 ? C1 PGT 501 B 1 
HETATM 23 O O3P PGT . . . N 2 174.726 115.962 128.004 1 108.85 ? O3P PGT 501 B 1 
HETATM 24 P P PGT . . . N 2 175.82 115.753 126.803 1 137.09 ? P PGT 501 B 1 
HETATM 25 O O1P PGT . . . N 2 175.182 115.019 125.664 1 120.67 ? O1P PGT 501 B 1 
HETATM 26 O O2P PGT . . . N 2 176.553 117.025 126.524 1 118.02 ? O2P PGT 501 B 1 
HETATM 27 O O4P PGT . . . N 2 176.754 114.733 127.687 1 125.12 ? O4P PGT 501 B 1 
HETATM 28 C C4 PGT . . . N 2 178.156 114.879 127.609 1 119.73 ? C4 PGT 501 B 1 
HETATM 29 C C5 PGT . . . N 2 178.661 114.258 126.311 1 118.23 ? C5 PGT 501 B 1 
HETATM 30 O O5 PGT . . . N 2 177.786 113.281 125.795 1 119.04 ? O5 PGT 501 B 1 
HETATM 31 C C6 PGT . . . N 2 180.066 113.715 126.512 1 114.29 ? C6 PGT 501 B 1 
HETATM 32 O O6 PGT . . . N 2 180.336 112.767 125.511 1 110.41 ? O6 PGT 501 B 1 
HETATM 33 C C3 PGT . . . N 2 173.948 115.715 131.258 1 109.53 ? C3 PGT 501 B 1 
HETATM 34 O O3 PGT . . . N 2 173.891 116.974 131.912 1 97.63 ? O3 PGT 501 B 1 
HETATM 35 C C11 PGT . . . N 2 174.33 117.036 133.161 1 109.64 ? C11 PGT 501 B 1 
HETATM 36 O O11 PGT . . . N 2 175.432 117.427 133.454 1 118.46 ? O11 PGT 501 B 1 
HETATM 37 C C12 PGT . . . N 2 173.296 116.563 134.14 1 109.95 ? C12 PGT 501 B 1 
HETATM 38 C C13 PGT . . . N 2 173.761 116.668 135.585 1 111.66 ? C13 PGT 501 B 1 
HETATM 39 C C14 PGT . . . N 2 174.685 115.527 135.984 1 107.13 ? C14 PGT 501 B 1 
HETATM 40 C C15 PGT . . . N 2 175.945 115.996 136.696 1 106.66 ? C15 PGT 501 B 1 
HETATM 41 C C16 PGT . . . N 2 176.662 114.88 137.443 1 111.3 ? C16 PGT 501 B 1 
HETATM 42 C C17 PGT . . . N 2 175.792 114.211 138.501 1 113.44 ? C17 PGT 501 B 1 
HETATM 43 C C18 PGT . . . N 2 176.521 113.142 139.304 1 110.42 ? C18 PGT 501 B 1 
HETATM 44 C C19 PGT . . . N 2 177.567 113.709 140.255 1 109.72 ? C19 PGT 501 B 1 
HETATM 45 C C20 PGT . . . N 2 178.434 112.639 140.904 1 112.37 ? C20 PGT 501 B 1 
HETATM 46 C C21 PGT . . . N 2 179.502 113.218 141.821 1 114 ? C21 PGT 501 B 1 
HETATM 47 C C22 PGT . . . N 2 180.4 112.165 142.456 1 116.37 ? C22 PGT 501 B 1 
HETATM 48 C C23 PGT . . . N 2 181.514 112.767 143.303 1 119.08 ? C23 PGT 501 B 1 
HETATM 49 C C24 PGT . . . N 2 182.308 111.732 144.09 1 118.36 ? C24 PGT 501 B 1 
HETATM 50 C C25 PGT . . . N 2 181.581 111.216 145.325 1 108.77 ? C25 PGT 501 B 1 
HETATM 51 C C26 PGT . . . N 2 182.477 110.375 146.222 1 103.39 ? C26 PGT 501 B 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    33 
_model_server_stats.query_time_ms           289 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           51 
#