data_6LVF
#
_model_server_result.job_id            IsjcizA6MG10Vye9RHA3Cw 
_model_server_result.datetime_utc      '2024-11-21 14:40:34' 
_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          6lvf 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":1003}' 
#
_entry.id    6LVF 
#
_exptl.entry_id    6LVF 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              751.023 
_entity.id                          4 
_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    2 
_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            6LVF 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6LVF 
_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    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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
? 4 E N N 
? 4 H 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 502 n n 
C48 H481 PGT sing 503 n n 
C48 H482 PGT sing 504 n n 
C48 H483 PGT sing 505 n n 
C47 C46 PGT sing 506 n n 
C47 H471 PGT sing 507 n n 
C47 H472 PGT sing 508 n n 
C46 C45 PGT sing 509 n n 
C46 H461 PGT sing 510 n n 
C46 H462 PGT sing 511 n n 
C45 C44 PGT sing 512 n n 
C45 H451 PGT sing 513 n n 
C45 H452 PGT sing 514 n n 
C44 C43 PGT sing 515 n n 
C44 H441 PGT sing 516 n n 
C44 H442 PGT sing 517 n n 
C43 C42 PGT sing 518 n n 
C43 H431 PGT sing 519 n n 
C43 H432 PGT sing 520 n n 
C42 C41 PGT sing 521 n n 
C42 H421 PGT sing 522 n n 
C42 H422 PGT sing 523 n n 
C41 C40 PGT sing 524 n n 
C41 H411 PGT sing 525 n n 
C41 H412 PGT sing 526 n n 
C40 C39 PGT sing 527 n n 
C40 H401 PGT sing 528 n n 
C40 H402 PGT sing 529 n n 
C39 C38 PGT sing 530 n n 
C39 H391 PGT sing 531 n n 
C39 H392 PGT sing 532 n n 
C38 C37 PGT sing 533 n n 
C38 H381 PGT sing 534 n n 
C38 H382 PGT sing 535 n n 
C37 C36 PGT sing 536 n n 
C37 H371 PGT sing 537 n n 
C37 H372 PGT sing 538 n n 
C36 C35 PGT sing 539 n n 
C36 H361 PGT sing 540 n n 
C36 H362 PGT sing 541 n n 
C35 C34 PGT sing 542 n n 
C35 H351 PGT sing 543 n n 
C35 H352 PGT sing 544 n n 
C34 C33 PGT sing 545 n n 
C34 H341 PGT sing 546 n n 
C34 H342 PGT sing 547 n n 
C33 C32 PGT sing 548 n n 
C33 H331 PGT sing 549 n n 
C33 H332 PGT sing 550 n n 
C32 C31 PGT sing 551 n n 
C32 H321 PGT sing 552 n n 
C32 H322 PGT sing 553 n n 
C31 O31 PGT doub 554 n n 
C31 O2 PGT sing 555 n n 
O2 C2 PGT sing 556 n n 
C2 C1 PGT sing 557 n n 
C2 C3 PGT sing 558 n n 
C2 H2 PGT sing 559 n n 
C1 O3P PGT sing 560 n n 
C1 H11 PGT sing 561 n n 
C1 H12 PGT sing 562 n n 
O3P P PGT sing 563 n n 
P O1P PGT doub 564 n n 
P O2P PGT sing 565 n n 
P O4P PGT sing 566 n n 
O2P HO2P PGT sing 567 n n 
O4P C4 PGT sing 568 n n 
C4 C5 PGT sing 569 n n 
C4 H41 PGT sing 570 n n 
C4 H42 PGT sing 571 n n 
C5 O5 PGT sing 572 n n 
C5 C6 PGT sing 573 n n 
C5 H5 PGT sing 574 n n 
O5 HO5 PGT sing 575 n n 
C6 O6 PGT sing 576 n n 
C6 H61 PGT sing 577 n n 
C6 H62 PGT sing 578 n n 
O6 HO6 PGT sing 579 n n 
C3 O3 PGT sing 580 n n 
C3 H31 PGT sing 581 n n 
C3 H32 PGT sing 582 n n 
O3 C11 PGT sing 583 n n 
C11 O11 PGT doub 584 n n 
C11 C12 PGT sing 585 n n 
C12 C13 PGT sing 586 n n 
C12 H121 PGT sing 587 n n 
C12 H122 PGT sing 588 n n 
C13 C14 PGT sing 589 n n 
C13 H131 PGT sing 590 n n 
C13 H132 PGT sing 591 n n 
C14 C15 PGT sing 592 n n 
C14 H141 PGT sing 593 n n 
C14 H142 PGT sing 594 n n 
C15 C16 PGT sing 595 n n 
C15 H151 PGT sing 596 n n 
C15 H152 PGT sing 597 n n 
C16 C17 PGT sing 598 n n 
C16 H161 PGT sing 599 n n 
C16 H162 PGT sing 600 n n 
C17 C18 PGT sing 601 n n 
C17 H171 PGT sing 602 n n 
C17 H172 PGT sing 603 n n 
C18 C19 PGT sing 604 n n 
C18 H181 PGT sing 605 n n 
C18 H182 PGT sing 606 n n 
C19 C20 PGT sing 607 n n 
C19 H191 PGT sing 608 n n 
C19 H192 PGT sing 609 n n 
C20 C21 PGT sing 610 n n 
C20 H201 PGT sing 611 n n 
C20 H202 PGT sing 612 n n 
C21 C22 PGT sing 613 n n 
C21 H211 PGT sing 614 n n 
C21 H212 PGT sing 615 n n 
C22 C23 PGT sing 616 n n 
C22 H221 PGT sing 617 n n 
C22 H222 PGT sing 618 n n 
C23 C24 PGT sing 619 n n 
C23 H231 PGT sing 620 n n 
C23 H232 PGT sing 621 n n 
C24 C25 PGT sing 622 n n 
C24 H241 PGT sing 623 n n 
C24 H242 PGT sing 624 n n 
C25 C26 PGT sing 625 n n 
C25 H251 PGT sing 626 n n 
C25 H252 PGT sing 627 n n 
C26 H261 PGT sing 628 n n 
C26 H262 PGT sing 629 n n 
C26 H263 PGT sing 630 n n 
#
_atom_sites.entry_id                     6LVF 
_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
C 2 EV9 B 1 1001 1001 EV9 LIG . 
D 3 LHG B 1 1002 1002 LHG LHG . 
E 4 PGT B 1 1003 1101 PGT PGT . 
F 2 EV9 A 1 1001 1001 EV9 LIG . 
G 3 LHG A 1 1002 1002 LHG LHG . 
H 4 PGT A 1 1003 1101 PGT PGT . 
#
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 . . . H 4 98.061 100.582 111.36 1 50.29 ? C48 PGT 1003 A 1 
HETATM 2 C C47 PGT . . . H 4 98.837 101.441 110.39 1 50.29 ? C47 PGT 1003 A 1 
HETATM 3 C C46 PGT . . . H 4 98.055 101.756 109.116 1 50.29 ? C46 PGT 1003 A 1 
HETATM 4 C C45 PGT . . . H 4 98.969 102.062 107.93 1 50.29 ? C45 PGT 1003 A 1 
HETATM 5 C C44 PGT . . . H 4 100.014 103.128 108.243 1 50.29 ? C44 PGT 1003 A 1 
HETATM 6 C C43 PGT . . . H 4 101.439 102.611 108.077 1 50.29 ? C43 PGT 1003 A 1 
HETATM 7 C C42 PGT . . . H 4 102.386 103.733 107.674 1 50.29 ? C42 PGT 1003 A 1 
HETATM 8 C C41 PGT . . . H 4 103.799 103.523 108.204 1 50.29 ? C41 PGT 1003 A 1 
HETATM 9 C C40 PGT . . . H 4 104.782 104.485 107.55 1 50.29 ? C40 PGT 1003 A 1 
HETATM 10 C C39 PGT . . . H 4 105.41 105.399 108.587 1 50.29 ? C39 PGT 1003 A 1 
HETATM 11 C C38 PGT . . . H 4 106.566 106.199 108.003 1 50.29 ? C38 PGT 1003 A 1 
HETATM 12 C C37 PGT . . . H 4 106.961 107.34 108.932 1 50.29 ? C37 PGT 1003 A 1 
HETATM 13 C C36 PGT . . . H 4 107.33 106.797 110.3 1 50.29 ? C36 PGT 1003 A 1 
HETATM 14 C C35 PGT . . . H 4 107.15 107.834 111.39 1 50.29 ? C35 PGT 1003 A 1 
HETATM 15 C C34 PGT . . . H 4 107.163 107.136 112.737 1 50.29 ? C34 PGT 1003 A 1 
HETATM 16 C C33 PGT . . . H 4 107.667 108.043 113.845 1 50.29 ? C33 PGT 1003 A 1 
HETATM 17 C C32 PGT . . . H 4 108.247 107.192 114.957 1 50.29 ? C32 PGT 1003 A 1 
HETATM 18 C C31 PGT . . . H 4 108.643 108.044 116.13 1 50.29 ? C31 PGT 1003 A 1 
HETATM 19 O O31 PGT . . . H 4 107.915 108.089 117.101 1 50.29 ? O31 PGT 1003 A 1 
HETATM 20 O O2 PGT . . . H 4 109.877 108.815 116.109 1 50.29 ? O2 PGT 1003 A 1 
HETATM 21 C C2 PGT . . . H 4 110.699 108.534 117.243 1 50.29 ? C2 PGT 1003 A 1 
HETATM 22 C C1 PGT . . . H 4 110.558 109.62 118.289 1 50.29 ? C1 PGT 1003 A 1 
HETATM 23 O O3P PGT . . . H 4 109.623 109.163 119.248 1 50.29 ? O3P PGT 1003 A 1 
HETATM 24 P P PGT . . . H 4 109.849 109.552 120.781 1 50.29 ? P PGT 1003 A 1 
HETATM 25 O O1P PGT . . . H 4 110.724 108.501 121.415 1 50.29 ? O1P PGT 1003 A 1 
HETATM 26 O O2P PGT . . . H 4 110.257 111.001 120.828 1 50.29 ? O2P PGT 1003 A 1 
HETATM 27 O O4P PGT . . . H 4 108.362 109.444 121.367 1 50.29 ? O4P PGT 1003 A 1 
HETATM 28 C C4 PGT . . . H 4 108.123 109.694 122.745 1 50.29 ? C4 PGT 1003 A 1 
HETATM 29 C C5 PGT . . . H 4 106.985 110.697 122.85 1 50.29 ? C5 PGT 1003 A 1 
HETATM 30 O O5 PGT . . . H 4 106.051 110.461 121.795 1 50.29 ? O5 PGT 1003 A 1 
HETATM 31 C C6 PGT . . . H 4 107.554 112.099 122.715 1 50.29 ? C6 PGT 1003 A 1 
HETATM 32 O O6 PGT . . . H 4 108.173 112.238 121.435 1 50.29 ? O6 PGT 1003 A 1 
HETATM 33 C C3 PGT . . . H 4 112.173 108.479 116.868 1 50.29 ? C3 PGT 1003 A 1 
HETATM 34 O O3 PGT . . . H 4 112.346 108.772 115.489 1 50.29 ? O3 PGT 1003 A 1 
HETATM 35 C C11 PGT . . . H 4 113.681 108.702 114.93 1 50.29 ? C11 PGT 1003 A 1 
HETATM 36 O O11 PGT . . . H 4 114.623 108.452 115.662 1 50.29 ? O11 PGT 1003 A 1 
HETATM 37 C C12 PGT . . . H 4 113.884 108.925 113.457 1 50.29 ? C12 PGT 1003 A 1 
HETATM 38 C C13 PGT . . . H 4 112.748 108.272 112.683 1 50.29 ? C13 PGT 1003 A 1 
HETATM 39 C C14 PGT . . . H 4 112.914 108.599 111.212 1 50.29 ? C14 PGT 1003 A 1 
HETATM 40 C C15 PGT . . . H 4 111.863 107.907 110.37 1 50.29 ? C15 PGT 1003 A 1 
HETATM 41 C C16 PGT . . . H 4 112.159 108.145 108.9 1 50.29 ? C16 PGT 1003 A 1 
HETATM 42 C C17 PGT . . . H 4 111.223 107.313 108.042 1 50.29 ? C17 PGT 1003 A 1 
HETATM 43 C C18 PGT . . . H 4 111.974 106.75 106.848 1 50.29 ? C18 PGT 1003 A 1 
HETATM 44 C C19 PGT . . . H 4 111.299 105.48 106.349 1 50.29 ? C19 PGT 1003 A 1 
HETATM 45 C C20 PGT . . . H 4 109.918 105.777 105.777 1 50.29 ? C20 PGT 1003 A 1 
HETATM 46 C C21 PGT . . . H 4 109.411 104.64 104.898 1 50.29 ? C21 PGT 1003 A 1 
HETATM 47 C C22 PGT . . . H 4 109.278 105.092 103.448 1 50.29 ? C22 PGT 1003 A 1 
HETATM 48 C C23 PGT . . . H 4 110.631 105.207 102.756 1 50.29 ? C23 PGT 1003 A 1 
HETATM 49 C C24 PGT . . . H 4 110.635 106.328 101.725 1 50.29 ? C24 PGT 1003 A 1 
HETATM 50 C C25 PGT . . . H 4 110.567 107.693 102.401 1 50.29 ? C25 PGT 1003 A 1 
HETATM 51 C C26 PGT . . . H 4 110.234 108.789 101.41 1 50.29 ? C26 PGT 1003 A 1 
#
_model_server_stats.io_time_ms              31 
_model_server_stats.parse_time_ms           26 
_model_server_stats.create_model_time_ms    58 
_model_server_stats.query_time_ms           1139 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           51 
#