data_8JEM
#
_model_server_result.job_id            sobJFSqHlxEN5-1pIfgqSg 
_model_server_result.datetime_utc      '2024-11-15 15:44:55' 
_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          8jem 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":502}' 
#
_entry.id    8JEM 
#
_exptl.entry_id    8JEM 
_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    8 
_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            8JEM 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8JEM 
_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,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB 
_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 F N N 
? 3 O N N 
? 3 Q N N 
? 3 U N N 
? 3 GA N N 
? 3 PA N N 
? 3 RA N N 
? 3 WA 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 486 n n 
C48 H481 PGT sing 487 n n 
C48 H482 PGT sing 488 n n 
C48 H483 PGT sing 489 n n 
C47 C46 PGT sing 490 n n 
C47 H471 PGT sing 491 n n 
C47 H472 PGT sing 492 n n 
C46 C45 PGT sing 493 n n 
C46 H461 PGT sing 494 n n 
C46 H462 PGT sing 495 n n 
C45 C44 PGT sing 496 n n 
C45 H451 PGT sing 497 n n 
C45 H452 PGT sing 498 n n 
C44 C43 PGT sing 499 n n 
C44 H441 PGT sing 500 n n 
C44 H442 PGT sing 501 n n 
C43 C42 PGT sing 502 n n 
C43 H431 PGT sing 503 n n 
C43 H432 PGT sing 504 n n 
C42 C41 PGT sing 505 n n 
C42 H421 PGT sing 506 n n 
C42 H422 PGT sing 507 n n 
C41 C40 PGT sing 508 n n 
C41 H411 PGT sing 509 n n 
C41 H412 PGT sing 510 n n 
C40 C39 PGT sing 511 n n 
C40 H401 PGT sing 512 n n 
C40 H402 PGT sing 513 n n 
C39 C38 PGT sing 514 n n 
C39 H391 PGT sing 515 n n 
C39 H392 PGT sing 516 n n 
C38 C37 PGT sing 517 n n 
C38 H381 PGT sing 518 n n 
C38 H382 PGT sing 519 n n 
C37 C36 PGT sing 520 n n 
C37 H371 PGT sing 521 n n 
C37 H372 PGT sing 522 n n 
C36 C35 PGT sing 523 n n 
C36 H361 PGT sing 524 n n 
C36 H362 PGT sing 525 n n 
C35 C34 PGT sing 526 n n 
C35 H351 PGT sing 527 n n 
C35 H352 PGT sing 528 n n 
C34 C33 PGT sing 529 n n 
C34 H341 PGT sing 530 n n 
C34 H342 PGT sing 531 n n 
C33 C32 PGT sing 532 n n 
C33 H331 PGT sing 533 n n 
C33 H332 PGT sing 534 n n 
C32 C31 PGT sing 535 n n 
C32 H321 PGT sing 536 n n 
C32 H322 PGT sing 537 n n 
C31 O31 PGT doub 538 n n 
C31 O2 PGT sing 539 n n 
O2 C2 PGT sing 540 n n 
C2 C1 PGT sing 541 n n 
C2 C3 PGT sing 542 n n 
C2 H2 PGT sing 543 n n 
C1 O3P PGT sing 544 n n 
C1 H11 PGT sing 545 n n 
C1 H12 PGT sing 546 n n 
O3P P PGT sing 547 n n 
P O1P PGT doub 548 n n 
P O2P PGT sing 549 n n 
P O4P PGT sing 550 n n 
O2P HO2P PGT sing 551 n n 
O4P C4 PGT sing 552 n n 
C4 C5 PGT sing 553 n n 
C4 H41 PGT sing 554 n n 
C4 H42 PGT sing 555 n n 
C5 O5 PGT sing 556 n n 
C5 C6 PGT sing 557 n n 
C5 H5 PGT sing 558 n n 
O5 HO5 PGT sing 559 n n 
C6 O6 PGT sing 560 n n 
C6 H61 PGT sing 561 n n 
C6 H62 PGT sing 562 n n 
O6 HO6 PGT sing 563 n n 
C3 O3 PGT sing 564 n n 
C3 H31 PGT sing 565 n n 
C3 H32 PGT sing 566 n n 
O3 C11 PGT sing 567 n n 
C11 O11 PGT doub 568 n n 
C11 C12 PGT sing 569 n n 
C12 C13 PGT sing 570 n n 
C12 H121 PGT sing 571 n n 
C12 H122 PGT sing 572 n n 
C13 C14 PGT sing 573 n n 
C13 H131 PGT sing 574 n n 
C13 H132 PGT sing 575 n n 
C14 C15 PGT sing 576 n n 
C14 H141 PGT sing 577 n n 
C14 H142 PGT sing 578 n n 
C15 C16 PGT sing 579 n n 
C15 H151 PGT sing 580 n n 
C15 H152 PGT sing 581 n n 
C16 C17 PGT sing 582 n n 
C16 H161 PGT sing 583 n n 
C16 H162 PGT sing 584 n n 
C17 C18 PGT sing 585 n n 
C17 H171 PGT sing 586 n n 
C17 H172 PGT sing 587 n n 
C18 C19 PGT sing 588 n n 
C18 H181 PGT sing 589 n n 
C18 H182 PGT sing 590 n n 
C19 C20 PGT sing 591 n n 
C19 H191 PGT sing 592 n n 
C19 H192 PGT sing 593 n n 
C20 C21 PGT sing 594 n n 
C20 H201 PGT sing 595 n n 
C20 H202 PGT sing 596 n n 
C21 C22 PGT sing 597 n n 
C21 H211 PGT sing 598 n n 
C21 H212 PGT sing 599 n n 
C22 C23 PGT sing 600 n n 
C22 H221 PGT sing 601 n n 
C22 H222 PGT sing 602 n n 
C23 C24 PGT sing 603 n n 
C23 H231 PGT sing 604 n n 
C23 H232 PGT sing 605 n n 
C24 C25 PGT sing 606 n n 
C24 H241 PGT sing 607 n n 
C24 H242 PGT sing 608 n n 
C25 C26 PGT sing 609 n n 
C25 H251 PGT sing 610 n n 
C25 H252 PGT sing 611 n n 
C26 H261 PGT sing 612 n n 
C26 H262 PGT sing 613 n n 
C26 H263 PGT sing 614 n n 
#
_atom_sites.entry_id                     8JEM 
_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 ASW A 1 501 501 ASW ASW . 
F 3 PGT A 1 502 601 PGT PGT . 
G 4 LMT A 1 503 602 LMT LMT . 
H 5 DGA A 1 504 603 DGA DGA . 
I 4 LMT A 1 505 604 LMT LMT . 
J 4 LMT A 1 506 605 LMT LMT . 
K 4 LMT A 1 507 701 LMT LMT . 
L 4 LMT A 1 508 504 LMT LMT . 
M 4 LMT A 1 509 5 LMT LMT . 
N 4 LMT A 1 510 7 LMT LMT . 
O 3 PGT A 1 511 14 PGT PGT . 
P 2 ASW B 1 501 501 ASW ASW . 
Q 3 PGT B 1 502 502 PGT PGT . 
R 4 LMT B 1 503 503 LMT LMT . 
S 4 LMT B 1 504 505 LMT LMT . 
T 4 LMT B 1 505 506 LMT LMT . 
U 3 PGT B 1 506 507 PGT PGT . 
V 4 LMT B 1 507 508 LMT LMT . 
W 4 LMT B 1 508 509 LMT LMT . 
X 4 LMT B 1 509 510 LMT LMT . 
Y 4 LMT B 1 510 601 LMT LMT . 
Z 4 LMT B 1 511 602 LMT LMT . 
AA 4 LMT B 1 512 2 LMT LMT . 
BA 4 LMT B 1 513 4 LMT LMT . 
CA 4 LMT B 1 514 11 LMT LMT . 
DA 4 LMT B 1 515 12 LMT LMT . 
EA 4 LMT B 1 516 13 LMT LMT . 
FA 2 ASW C 1 501 501 ASW ASW . 
GA 3 PGT C 1 502 502 PGT PGT . 
HA 4 LMT C 1 503 503 LMT LMT . 
IA 4 LMT C 1 504 504 LMT LMT . 
JA 5 DGA C 1 505 505 DGA DGA . 
KA 4 LMT C 1 506 506 LMT LMT . 
LA 4 LMT C 1 507 601 LMT LMT . 
MA 4 LMT C 1 508 703 LMT LMT . 
NA 4 LMT C 1 509 9 LMT LMT . 
OA 4 LMT C 1 510 10 LMT LMT . 
PA 3 PGT C 1 511 15 PGT PGT . 
QA 2 ASW D 1 501 501 ASW ASW . 
RA 3 PGT D 1 502 601 PGT PGT . 
SA 4 LMT D 1 503 701 LMT LMT . 
TA 4 LMT D 1 504 702 LMT LMT . 
UA 4 LMT D 1 505 705 LMT LMT . 
VA 4 LMT D 1 506 706 LMT LMT . 
WA 3 PGT D 1 507 707 PGT PGT . 
XA 4 LMT D 1 508 708 LMT LMT . 
YA 4 LMT D 1 509 709 LMT LMT . 
ZA 4 LMT D 1 510 801 LMT LMT . 
AB 4 LMT D 1 511 802 LMT LMT . 
BB 4 LMT D 1 512 1 LMT LMT . 
CB 4 LMT D 1 513 3 LMT LMT . 
DB 4 LMT D 1 514 6 LMT LMT . 
EB 4 LMT D 1 515 8 LMT LMT . 
FB 4 LMT D 1 516 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 . . . F 3 102.19 186.082 118.119 1 73.9 ? C48 PGT 502 A 1 
HETATM 2 C C47 PGT . . . F 3 101.624 186.799 119.337 1 81.1 ? C47 PGT 502 A 1 
HETATM 3 C C46 PGT . . . F 3 102.449 186.566 120.598 1 84.89 ? C46 PGT 502 A 1 
HETATM 4 C C45 PGT . . . F 3 101.772 187.059 121.87 1 80.4 ? C45 PGT 502 A 1 
HETATM 5 C C44 PGT . . . F 3 102.657 186.966 123.107 1 80.18 ? C44 PGT 502 A 1 
HETATM 6 C C43 PGT . . . F 3 103.397 185.64 123.227 1 79.13 ? C43 PGT 502 A 1 
HETATM 7 C C42 PGT . . . F 3 103.768 185.27 124.659 1 81.6 ? C42 PGT 502 A 1 
HETATM 8 C C41 PGT . . . F 3 104.401 183.888 124.788 1 81.05 ? C41 PGT 502 A 1 
HETATM 9 C C40 PGT . . . F 3 104.554 183.422 126.231 1 83.07 ? C40 PGT 502 A 1 
HETATM 10 C C39 PGT . . . F 3 104.967 181.963 126.363 1 81.03 ? C39 PGT 502 A 1 
HETATM 11 C C38 PGT . . . F 3 104.905 181.459 127.798 1 76.65 ? C38 PGT 502 A 1 
HETATM 12 C C37 PGT . . . F 3 105.557 180.102 128.007 1 74.53 ? C37 PGT 502 A 1 
HETATM 13 C C36 PGT . . . F 3 105.486 179.646 129.458 1 80.13 ? C36 PGT 502 A 1 
HETATM 14 C C35 PGT . . . F 3 106.324 178.413 129.758 1 82.52 ? C35 PGT 502 A 1 
HETATM 15 C C34 PGT . . . F 3 107.814 178.697 129.888 1 80.91 ? C34 PGT 502 A 1 
HETATM 16 C C33 PGT . . . F 3 108.226 179.195 131.269 1 78.56 ? C33 PGT 502 A 1 
HETATM 17 C C32 PGT . . . F 3 109.74 179.267 131.399 1 85.81 ? C32 PGT 502 A 1 
HETATM 18 C C31 PGT . . . F 3 110.242 179.553 132.788 1 82.54 ? C31 PGT 502 A 1 
HETATM 19 O O31 PGT . . . F 3 109.64 180.188 133.614 1 74.6 ? O31 PGT 502 A 1 
HETATM 20 O O2 PGT . . . F 3 111.451 179.027 133.007 1 81 ? O2 PGT 502 A 1 
HETATM 21 C C2 PGT . . . F 3 111.781 177.688 132.604 1 76.25 ? C2 PGT 502 A 1 
HETATM 22 C C1 PGT . . . F 3 111.885 176.751 133.792 1 69.64 ? C1 PGT 502 A 1 
HETATM 23 O O3P PGT . . . F 3 111.19 177.237 134.911 1 82.56 ? O3P PGT 502 A 1 
HETATM 24 P P PGT . . . F 3 112.03 178.06 136.05 1 102.67 ? P PGT 502 A 1 
HETATM 25 O O1P PGT . . . F 3 112.477 179.374 135.496 1 79.71 ? O1P PGT 502 A 1 
HETATM 26 O O2P PGT . . . F 3 113.025 177.178 136.732 1 87.73 ? O2P PGT 502 A 1 
HETATM 27 O O4P PGT . . . F 3 110.713 178.282 136.997 1 95.09 ? O4P PGT 502 A 1 
HETATM 28 C C4 PGT . . . F 3 110.667 179.448 137.784 1 85.11 ? C4 PGT 502 A 1 
HETATM 29 C C5 PGT . . . F 3 109.846 180.498 137.048 1 87.21 ? C5 PGT 502 A 1 
HETATM 30 O O5 PGT . . . F 3 110.384 180.812 135.782 1 86.6 ? O5 PGT 502 A 1 
HETATM 31 C C6 PGT . . . F 3 109.668 181.722 137.932 1 84.1 ? C6 PGT 502 A 1 
HETATM 32 O O6 PGT . . . F 3 109.045 181.34 139.132 1 79.2 ? O6 PGT 502 A 1 
HETATM 33 C C3 PGT . . . F 3 113.043 177.76 131.779 1 78.88 ? C3 PGT 502 A 1 
HETATM 34 O O3 PGT . . . F 3 112.735 177.527 130.416 1 85.9 ? O3 PGT 502 A 1 
HETATM 35 C C11 PGT . . . F 3 112.67 176.272 130.008 1 80.01 ? C11 PGT 502 A 1 
HETATM 36 O O11 PGT . . . F 3 112.99 175.334 130.692 1 73.82 ? O11 PGT 502 A 1 
HETATM 37 C C12 PGT . . . F 3 112.147 176.19 128.606 1 75.86 ? C12 PGT 502 A 1 
HETATM 38 C C13 PGT . . . F 3 111.141 177.287 128.305 1 69.06 ? C13 PGT 502 A 1 
HETATM 39 C C14 PGT . . . F 3 110.58 177.179 126.897 1 71.64 ? C14 PGT 502 A 1 
HETATM 40 C C15 PGT . . . F 3 109.778 178.405 126.489 1 80.02 ? C15 PGT 502 A 1 
HETATM 41 C C16 PGT . . . F 3 109.256 178.337 125.06 1 84.5 ? C16 PGT 502 A 1 
HETATM 42 C C17 PGT . . . F 3 107.816 177.858 124.95 1 73.78 ? C17 PGT 502 A 1 
HETATM 43 C C18 PGT . . . F 3 107.086 178.46 123.76 1 75.4 ? C18 PGT 502 A 1 
HETATM 44 C C19 PGT . . . F 3 107.152 179.979 123.749 1 79.92 ? C19 PGT 502 A 1 
HETATM 45 C C20 PGT . . . F 3 107.047 180.589 122.36 1 82.23 ? C20 PGT 502 A 1 
HETATM 46 C C21 PGT . . . F 3 107.458 182.056 122.332 1 83.4 ? C21 PGT 502 A 1 
HETATM 47 C C22 PGT . . . F 3 108.784 182.31 123.039 1 77.54 ? C22 PGT 502 A 1 
HETATM 48 C C23 PGT . . . F 3 108.696 183.355 124.143 1 82.72 ? C23 PGT 502 A 1 
HETATM 49 C C24 PGT . . . F 3 109.938 183.415 125.021 1 81.92 ? C24 PGT 502 A 1 
HETATM 50 C C25 PGT . . . F 3 109.974 182.355 126.113 1 79.26 ? C25 PGT 502 A 1 
HETATM 51 C C26 PGT . . . F 3 109.803 182.939 127.508 1 68.82 ? C26 PGT 502 A 1 
#
_model_server_stats.io_time_ms              31 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    50 
_model_server_stats.query_time_ms           663 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           51 
#