data_8JEM
#
_model_server_result.job_id            yMO0YIvFiYAgvs8uE6fM0A 
_model_server_result.datetime_utc      '2024-11-15 15:53:29' 
_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          8jem 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"O","auth_seq_id":511}' 
#
_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 . . . O 3 132.39 138.812 126.673 1 124.95 ? C48 PGT 511 A 1 
HETATM 2 C C47 PGT . . . O 3 133.733 139.096 126.016 1 126.49 ? C47 PGT 511 A 1 
HETATM 3 C C46 PGT . . . O 3 133.599 139.845 124.697 1 128.08 ? C46 PGT 511 A 1 
HETATM 4 C C45 PGT . . . O 3 134.874 140.56 124.267 1 127.87 ? C45 PGT 511 A 1 
HETATM 5 C C44 PGT . . . O 3 134.661 141.539 123.12 1 126.51 ? C44 PGT 511 A 1 
HETATM 6 C C43 PGT . . . O 3 134.061 140.89 121.88 1 126.48 ? C43 PGT 511 A 1 
HETATM 7 C C42 PGT . . . O 3 133.693 141.893 120.796 1 125.43 ? C42 PGT 511 A 1 
HETATM 8 C C41 PGT . . . O 3 134.764 142.035 119.726 1 123.29 ? C41 PGT 511 A 1 
HETATM 9 C C40 PGT . . . O 3 134.89 140.803 118.843 1 125.58 ? C40 PGT 511 A 1 
HETATM 10 C C39 PGT . . . O 3 133.75 140.671 117.846 1 127.78 ? C39 PGT 511 A 1 
HETATM 11 C C38 PGT . . . O 3 133.54 141.93 117.018 1 127.07 ? C38 PGT 511 A 1 
HETATM 12 C C37 PGT . . . O 3 132.716 141.698 115.761 1 125.65 ? C37 PGT 511 A 1 
HETATM 13 C C36 PGT . . . O 3 133.546 141.246 114.568 1 123.91 ? C36 PGT 511 A 1 
HETATM 14 C C35 PGT . . . O 3 132.803 141.401 113.25 1 125.77 ? C35 PGT 511 A 1 
HETATM 15 C C34 PGT . . . O 3 131.971 142.673 113.181 1 126.95 ? C34 PGT 511 A 1 
HETATM 16 C C33 PGT . . . O 3 132.239 143.488 111.924 1 126.83 ? C33 PGT 511 A 1 
HETATM 17 C C32 PGT . . . O 3 131.721 142.812 110.667 1 127.54 ? C32 PGT 511 A 1 
HETATM 18 C C31 PGT . . . O 3 132.793 142.129 109.864 1 127.33 ? C31 PGT 511 A 1 
HETATM 19 O O31 PGT . . . O 3 133.59 142.692 109.158 1 126.03 ? O31 PGT 511 A 1 
HETATM 20 O O2 PGT . . . O 3 132.749 140.81 110.036 1 130.19 ? O2 PGT 511 A 1 
HETATM 21 C C2 PGT . . . O 3 132.865 139.93 108.91 1 128.55 ? C2 PGT 511 A 1 
HETATM 22 C C1 PGT . . . O 3 131.979 140.36 107.753 1 126.21 ? C1 PGT 511 A 1 
HETATM 23 O O3P PGT . . . O 3 132.69 141.133 106.816 1 129.45 ? O3P PGT 511 A 1 
HETATM 24 P P PGT . . . O 3 133.243 140.399 105.459 1 136.41 ? P PGT 511 A 1 
HETATM 25 O O1P PGT . . . O 3 133.895 139.099 105.822 1 129.61 ? O1P PGT 511 A 1 
HETATM 26 O O2P PGT . . . O 3 132.212 140.424 104.373 1 127.77 ? O2P PGT 511 A 1 
HETATM 27 O O4P PGT . . . O 3 134.398 141.536 105.205 1 130.21 ? O4P PGT 511 A 1 
HETATM 28 C C4 PGT . . . O 3 133.995 142.814 104.768 1 128.32 ? C4 PGT 511 A 1 
HETATM 29 C C5 PGT . . . O 3 134.293 143.814 105.877 1 127.26 ? C5 PGT 511 A 1 
HETATM 30 O O5 PGT . . . O 3 134.436 143.19 107.131 1 127.53 ? O5 PGT 511 A 1 
HETATM 31 C C6 PGT . . . O 3 133.226 144.895 105.893 1 127.29 ? C6 PGT 511 A 1 
HETATM 32 O O6 PGT . . . O 3 133.767 146.091 105.391 1 125.43 ? O6 PGT 511 A 1 
HETATM 33 C C3 PGT . . . O 3 132.615 138.535 109.429 1 128.25 ? C3 PGT 511 A 1 
HETATM 34 O O3 PGT . . . O 3 132.811 138.529 110.834 1 131.51 ? O3 PGT 511 A 1 
HETATM 35 C C11 PGT . . . O 3 133.373 137.465 111.39 1 127.69 ? C11 PGT 511 A 1 
HETATM 36 O O11 PGT . . . O 3 133.642 136.46 110.782 1 126.09 ? O11 PGT 511 A 1 
HETATM 37 C C12 PGT . . . O 3 133.628 137.682 112.852 1 126.23 ? C12 PGT 511 A 1 
HETATM 38 C C13 PGT . . . O 3 133.781 136.384 113.622 1 125.39 ? C13 PGT 511 A 1 
HETATM 39 C C14 PGT . . . O 3 134.986 136.423 114.547 1 124.58 ? C14 PGT 511 A 1 
HETATM 40 C C15 PGT . . . O 3 134.876 137.49 115.623 1 124.67 ? C15 PGT 511 A 1 
HETATM 41 C C16 PGT . . . O 3 133.842 137.144 116.681 1 125.51 ? C16 PGT 511 A 1 
HETATM 42 C C17 PGT . . . O 3 134.245 135.958 117.543 1 124.02 ? C17 PGT 511 A 1 
HETATM 43 C C18 PGT . . . O 3 135.332 136.29 118.553 1 124.4 ? C18 PGT 511 A 1 
HETATM 44 C C19 PGT . . . O 3 134.987 135.828 119.962 1 125.51 ? C19 PGT 511 A 1 
HETATM 45 C C20 PGT . . . O 3 133.918 136.687 120.621 1 126.14 ? C20 PGT 511 A 1 
HETATM 46 C C21 PGT . . . O 3 133.069 135.926 121.632 1 126.41 ? C21 PGT 511 A 1 
HETATM 47 C C22 PGT . . . O 3 133.888 135.176 122.675 1 126.47 ? C22 PGT 511 A 1 
HETATM 48 C C23 PGT . . . O 3 134.46 136.072 123.765 1 128.21 ? C23 PGT 511 A 1 
HETATM 49 C C24 PGT . . . O 3 135.224 135.299 124.831 1 127.8 ? C24 PGT 511 A 1 
HETATM 50 C C25 PGT . . . O 3 134.332 134.437 125.715 1 127.81 ? C25 PGT 511 A 1 
HETATM 51 C C26 PGT . . . O 3 133.63 135.235 126.803 1 125.94 ? C26 PGT 511 A 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           316 
_model_server_stats.encode_time_ms          21 
_model_server_stats.element_count           51 
#