data_8ZKP
#
_model_server_result.job_id            WMzLp6RUp-dM22IQzdaxyg 
_model_server_result.datetime_utc      '2025-09-07 12:51:36' 
_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          8zkp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"V","auth_seq_id":1003}' 
#
_entry.id    8ZKP 
#
_exptl.entry_id    8ZKP 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              720.012 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(1S)-2-{[(2-AMINOETHOXY)(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            8ZKP 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8ZKP 
_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    nonameric 
_pdbx_struct_assembly.oligomeric_count      9 
_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 
_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
? 5 L N N 
? 5 M N N 
? 5 Q N N 
? 5 R N N 
? 5 V N N 
? 5 W N N 
#
_struct_conn.conn_type_id                   covale 
_struct_conn.details                        ? 
_struct_conn.id                             covale1 
_struct_conn.ptnr1_label_asym_id            F 
_struct_conn.ptnr1_label_atom_id            OG 
_struct_conn.ptnr1_label_comp_id            SER 
_struct_conn.ptnr1_label_seq_id             41 
_struct_conn.ptnr1_auth_asym_id             D 
_struct_conn.ptnr1_auth_comp_id             SER 
_struct_conn.ptnr1_auth_seq_id              41 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            S 
_struct_conn.ptnr2_label_atom_id            P 
_struct_conn.ptnr2_label_comp_id            PN7 
_struct_conn.ptnr2_label_seq_id             . 
_struct_conn.ptnr2_auth_asym_id             D 
_struct_conn.ptnr2_auth_comp_id             PN7 
_struct_conn.ptnr2_auth_seq_id              101 
_struct_conn.ptnr2_symmetry                 1_555 
_struct_conn.pdbx_ptnr1_PDB_ins_code        ? 
_struct_conn.pdbx_ptnr1_label_alt_id        ? 
_struct_conn.pdbx_ptnr1_standard_comp_id    ? 
_struct_conn.pdbx_ptnr2_PDB_ins_code        ? 
_struct_conn.pdbx_ptnr2_label_alt_id        ? 
_struct_conn.pdbx_ptnr3_PDB_ins_code        ? 
_struct_conn.pdbx_ptnr3_label_alt_id        ? 
_struct_conn.pdbx_ptnr3_label_asym_id       ? 
_struct_conn.pdbx_ptnr3_label_atom_id       ? 
_struct_conn.pdbx_ptnr3_label_comp_id       ? 
_struct_conn.pdbx_ptnr3_label_seq_id        ? 
_struct_conn.pdbx_PDB_id                    ? 
_struct_conn.pdbx_dist_value                1.639 
_struct_conn.pdbx_value_order               ? 
#
_chem_comp.formula           'C39 H78 N O8 P' 
_chem_comp.formula_weight    720.012 
_chem_comp.id                PEV 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     PHOSPHATIDYLETHANOLAMINE;1-PALMITOYL-2-OLEOYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE 
#
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 PEV sing 490 n n 
C48 H481 PEV sing 491 n n 
C48 H482 PEV sing 492 n n 
C48 H483 PEV sing 493 n n 
C47 C46 PEV sing 494 n n 
C47 H471 PEV sing 495 n n 
C47 H472 PEV sing 496 n n 
C46 C45 PEV sing 497 n n 
C46 H461 PEV sing 498 n n 
C46 H462 PEV sing 499 n n 
C45 C44 PEV sing 500 n n 
C45 H451 PEV sing 501 n n 
C45 H452 PEV sing 502 n n 
C44 C43 PEV sing 503 n n 
C44 H441 PEV sing 504 n n 
C44 H442 PEV sing 505 n n 
C43 C42 PEV sing 506 n n 
C43 H431 PEV sing 507 n n 
C43 H432 PEV sing 508 n n 
C42 C41 PEV sing 509 n n 
C42 H421 PEV sing 510 n n 
C42 H422 PEV sing 511 n n 
C41 C40 PEV sing 512 n n 
C41 H411 PEV sing 513 n n 
C41 H412 PEV sing 514 n n 
C40 C39 PEV sing 515 n n 
C40 H401 PEV sing 516 n n 
C40 H402 PEV sing 517 n n 
C39 C38 PEV sing 518 n n 
C39 H391 PEV sing 519 n n 
C39 H392 PEV sing 520 n n 
C38 C37 PEV sing 521 n n 
C38 H381 PEV sing 522 n n 
C38 H382 PEV sing 523 n n 
C37 C36 PEV sing 524 n n 
C37 H371 PEV sing 525 n n 
C37 H372 PEV sing 526 n n 
C36 C35 PEV sing 527 n n 
C36 H361 PEV sing 528 n n 
C36 H362 PEV sing 529 n n 
C35 C34 PEV sing 530 n n 
C35 H351 PEV sing 531 n n 
C35 H352 PEV sing 532 n n 
C34 C33 PEV sing 533 n n 
C34 H341 PEV sing 534 n n 
C34 H342 PEV sing 535 n n 
C33 C32 PEV sing 536 n n 
C33 H331 PEV sing 537 n n 
C33 H332 PEV sing 538 n n 
C32 C31 PEV sing 539 n n 
C32 H321 PEV sing 540 n n 
C32 H322 PEV sing 541 n n 
C31 O31 PEV doub 542 n n 
C31 O2 PEV sing 543 n n 
O2 C2 PEV sing 544 n n 
C2 C1 PEV sing 545 n n 
C2 C3 PEV sing 546 n n 
C2 H2 PEV sing 547 n n 
C1 O3P PEV sing 548 n n 
C1 H11 PEV sing 549 n n 
C1 H12 PEV sing 550 n n 
O3P P PEV sing 551 n n 
P O1P PEV doub 552 n n 
P O2P PEV sing 553 n n 
P O4P PEV sing 554 n n 
O2P HO2P PEV sing 555 n n 
O4P C4 PEV sing 556 n n 
C4 C5 PEV sing 557 n n 
C4 H41 PEV sing 558 n n 
C4 H42 PEV sing 559 n n 
C5 N6 PEV sing 560 n n 
C5 H51 PEV sing 561 n n 
C5 H52 PEV sing 562 n n 
N6 HN61 PEV sing 563 n n 
N6 HN62 PEV sing 564 n n 
C3 O3 PEV sing 565 n n 
C3 H31 PEV sing 566 n n 
C3 H32 PEV sing 567 n n 
O3 C11 PEV sing 568 n n 
C11 O11 PEV doub 569 n n 
C11 C12 PEV sing 570 n n 
C12 C13 PEV sing 571 n n 
C12 H121 PEV sing 572 n n 
C12 H122 PEV sing 573 n n 
C13 C14 PEV sing 574 n n 
C13 H131 PEV sing 575 n n 
C13 H132 PEV sing 576 n n 
C14 C15 PEV sing 577 n n 
C14 H141 PEV sing 578 n n 
C14 H142 PEV sing 579 n n 
C15 C16 PEV sing 580 n n 
C15 H151 PEV sing 581 n n 
C15 H152 PEV sing 582 n n 
C16 C17 PEV sing 583 n n 
C16 H161 PEV sing 584 n n 
C16 H162 PEV sing 585 n n 
C17 C18 PEV sing 586 n n 
C17 H171 PEV sing 587 n n 
C17 H172 PEV sing 588 n n 
C18 C19 PEV sing 589 n n 
C18 H181 PEV sing 590 n n 
C18 H182 PEV sing 591 n n 
C19 C20 PEV sing 592 n n 
C19 H191 PEV sing 593 n n 
C19 H192 PEV sing 594 n n 
C20 C21 PEV sing 595 n n 
C20 H201 PEV sing 596 n n 
C20 H202 PEV sing 597 n n 
C21 C22 PEV sing 598 n n 
C21 H211 PEV sing 599 n n 
C21 H212 PEV sing 600 n n 
C22 C23 PEV sing 601 n n 
C22 H221 PEV sing 602 n n 
C22 H222 PEV sing 603 n n 
C23 C24 PEV sing 604 n n 
C23 H231 PEV sing 605 n n 
C23 H232 PEV sing 606 n n 
C24 C25 PEV sing 607 n n 
C24 H241 PEV sing 608 n n 
C24 H242 PEV sing 609 n n 
C25 C26 PEV sing 610 n n 
C25 H251 PEV sing 611 n n 
C25 H252 PEV sing 612 n n 
C26 H261 PEV sing 613 n n 
C26 H262 PEV sing 614 n n 
C26 H263 PEV sing 615 n n 
#
_atom_sites.entry_id                     8ZKP 
_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
J 4 CDL A 1 1001 2 CDL CDL . 
K 4 CDL A 1 1002 5 CDL CDL . 
L 5 PEV A 1 1003 1 PEV PEV . 
M 5 PEV A 1 1004 5 PEV PEV . 
N 6 PN7 H 1 101 2 PN7 PN7 . 
O 4 CDL B 1 1001 1 CDL CDL . 
P 4 CDL B 1 1002 6 CDL CDL . 
Q 5 PEV B 1 1003 4 PEV PEV . 
R 5 PEV C 1 201 2 PEV PEV . 
S 6 PN7 D 1 101 1 PN7 PN7 . 
T 4 CDL E 1 1001 3 CDL CDL . 
U 4 CDL E 1 1002 4 CDL CDL . 
V 5 PEV E 1 1003 6 PEV PEV . 
W 5 PEV G 1 201 3 PEV PEV . 
X 6 PN7 I 1 101 3 PN7 PN7 . 
#
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 PEV . . . V 5 169.377 200.478 169.74 1 53.65 ? C48 PEV 1003 E 1 
HETATM 2 C C47 PEV . . . V 5 170.287 201.226 170.708 1 53.65 ? C47 PEV 1003 E 1 
HETATM 3 C C46 PEV . . . V 5 169.765 202.646 170.889 1 53.65 ? C46 PEV 1003 E 1 
HETATM 4 C C45 PEV . . . V 5 170.664 203.389 171.87 1 53.65 ? C45 PEV 1003 E 1 
HETATM 5 C C44 PEV . . . V 5 170.179 203.139 173.296 1 53.65 ? C44 PEV 1003 E 1 
HETATM 6 C C43 PEV . . . V 5 169.279 204.292 173.73 1 53.65 ? C43 PEV 1003 E 1 
HETATM 7 C C42 PEV . . . V 5 168.454 203.85 174.935 1 53.65 ? C42 PEV 1003 E 1 
HETATM 8 C C41 PEV . . . V 5 168.975 204.506 176.211 1 53.65 ? C41 PEV 1003 E 1 
HETATM 9 C C40 PEV . . . V 5 168.805 203.533 177.374 1 53.65 ? C40 PEV 1003 E 1 
HETATM 10 C C39 PEV . . . V 5 169.794 202.384 177.202 1 53.65 ? C39 PEV 1003 E 1 
HETATM 11 C C38 PEV . . . V 5 170.016 201.683 178.539 1 53.65 ? C38 PEV 1003 E 1 
HETATM 12 C C37 PEV . . . V 5 168.943 200.619 178.74 1 53.65 ? C37 PEV 1003 E 1 
HETATM 13 C C36 PEV . . . V 5 169.616 199.273 178.989 1 53.65 ? C36 PEV 1003 E 1 
HETATM 14 C C35 PEV . . . V 5 170.179 199.232 180.405 1 53.65 ? C35 PEV 1003 E 1 
HETATM 15 C C34 PEV . . . V 5 170.852 197.881 180.636 1 53.65 ? C34 PEV 1003 E 1 
HETATM 16 C C33 PEV . . . V 5 170.689 197.465 182.097 1 53.65 ? C33 PEV 1003 E 1 
HETATM 17 C C32 PEV . . . V 5 171.356 196.109 182.317 1 53.65 ? C32 PEV 1003 E 1 
HETATM 18 C C31 PEV . . . V 5 170.608 195.337 183.402 1 53.65 ? C31 PEV 1003 E 1 
HETATM 19 O O31 PEV . . . V 5 169.611 195.782 183.861 1 53.65 ? O31 PEV 1003 E 1 
HETATM 20 O O2 PEV . . . V 5 171.1 194.11 183.861 1 53.65 ? O2 PEV 1003 E 1 
HETATM 21 C C2 PEV . . . V 5 170.479 192.988 183.306 1 53.65 ? C2 PEV 1003 E 1 
HETATM 22 C C1 PEV . . . V 5 170.45 191.856 184.329 1 53.65 ? C1 PEV 1003 E 1 
HETATM 23 O O3P PEV . . . V 5 169.328 191.998 185.15 1 53.65 ? O3P PEV 1003 E 1 
HETATM 24 P P PEV . . . V 5 169.416 193.045 186.418 1 53.65 ? P PEV 1003 E 1 
HETATM 25 O O1P PEV . . . V 5 168.629 194.291 186.093 1 53.65 ? O1P PEV 1003 E 1 
HETATM 26 O O2P PEV . . . V 5 168.836 192.394 187.649 1 53.65 ? O2P PEV 1003 E 1 
HETATM 27 O O4P PEV . . . V 5 170.991 193.441 186.699 1 53.65 ? O4P PEV 1003 E 1 
HETATM 28 C C4 PEV . . . V 5 171.277 194.658 187.328 1 53.65 ? C4 PEV 1003 E 1 
HETATM 29 C C5 PEV . . . V 5 172.298 195.437 186.503 1 53.65 ? C5 PEV 1003 E 1 
HETATM 30 N N6 PEV . . . V 5 171.895 196.829 186.424 1 53.65 ? N6 PEV 1003 E 1 
HETATM 31 C C3 PEV . . . V 5 171.27 192.525 182.087 1 53.65 ? C3 PEV 1003 E 1 
HETATM 32 O O3 PEV . . . V 5 170.847 191.243 181.727 1 53.65 ? O3 PEV 1003 E 1 
HETATM 33 C C11 PEV . . . V 5 171.626 190.656 180.728 1 53.65 ? C11 PEV 1003 E 1 
HETATM 34 O O11 PEV . . . V 5 172.243 189.674 180.964 1 53.65 ? O11 PEV 1003 E 1 
HETATM 35 C C12 PEV . . . V 5 171.684 191.281 179.338 1 53.65 ? C12 PEV 1003 E 1 
HETATM 36 C C13 PEV . . . V 5 170.267 191.482 178.805 1 53.65 ? C13 PEV 1003 E 1 
HETATM 37 C C14 PEV . . . V 5 170.333 192.22 177.472 1 53.65 ? C14 PEV 1003 E 1 
HETATM 38 C C15 PEV . . . V 5 171.046 193.557 177.657 1 53.65 ? C15 PEV 1003 E 1 
HETATM 39 C C16 PEV . . . V 5 171.615 194.019 176.319 1 53.65 ? C16 PEV 1003 E 1 
HETATM 40 C C17 PEV . . . V 5 172.757 193.097 175.908 1 53.65 ? C17 PEV 1003 E 1 
HETATM 41 C C18 PEV . . . V 5 172.416 192.42 174.584 1 53.65 ? C18 PEV 1003 E 1 
HETATM 42 C C19 PEV . . . V 5 172.544 193.42 173.44 1 53.65 ? C19 PEV 1003 E 1 
HETATM 43 C C20 PEV . . . V 5 172.352 192.705 172.105 1 53.65 ? C20 PEV 1003 E 1 
HETATM 44 C C21 PEV . . . V 5 172.979 191.314 172.165 1 53.65 ? C21 PEV 1003 E 1 
HETATM 45 C C22 PEV . . . V 5 173.543 190.937 170.798 1 53.65 ? C22 PEV 1003 E 1 
HETATM 46 C C23 PEV . . . V 5 172.403 190.704 169.812 1 53.65 ? C23 PEV 1003 E 1 
HETATM 47 C C24 PEV . . . V 5 172.87 191.084 168.409 1 53.65 ? C24 PEV 1003 E 1 
HETATM 48 C C25 PEV . . . V 5 173.391 192.518 168.414 1 53.65 ? C25 PEV 1003 E 1 
HETATM 49 C C26 PEV . . . V 5 173.925 192.866 167.027 1 53.65 ? C26 PEV 1003 E 1 
#
_model_server_stats.io_time_ms              20 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    28 
_model_server_stats.query_time_ms           337 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           49 
#