data_8VJL
#
_model_server_result.job_id            YdMncDAtCvq2-7bDqAsOdg 
_model_server_result.datetime_utc      '2024-12-26 16:05:26' 
_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          8vjl 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":402}' 
#
_entry.id    8VJL 
#
_exptl.entry_id    8VJL 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              691.959 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            DI-PALMITOYL-3-SN-PHOSPHATIDYLETHANOLAMINE 
_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            8VJL 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8VJL 
_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    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_pdbx_struct_assembly.details               author_and_software_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 
_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    x,y,z 
_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 J N N 
? 4 M N N 
#
_chem_comp.formula           'C37 H74 N O8 P' 
_chem_comp.formula_weight    691.959 
_chem_comp.id                PEF 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              DI-PALMITOYL-3-SN-PHOSPHATIDYLETHANOLAMINE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     3-[AMINOETHYLPHOSPHORYL]-[1,2-DI-PALMITOYL]-SN-GLYCEROL 
#
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
C2 C1 PEF sing 395 n n 
C2 C3 PEF sing 396 n n 
C2 O2 PEF sing 397 n n 
C2 H21 PEF sing 398 n n 
C1 O3P PEF sing 399 n n 
C1 H11 PEF sing 400 n n 
C1 H12 PEF sing 401 n n 
N C5 PEF sing 402 n n 
N HN1 PEF sing 403 n n 
N HN2 PEF sing 404 n n 
C3 O3 PEF sing 405 n n 
C3 H31 PEF sing 406 n n 
C3 H32 PEF sing 407 n n 
C4 C5 PEF sing 408 n n 
C4 O4P PEF sing 409 n n 
C4 H41 PEF sing 410 n n 
C4 H42 PEF sing 411 n n 
C5 H51 PEF sing 412 n n 
C5 H52 PEF sing 413 n n 
C10 C11 PEF sing 414 n n 
C10 O4 PEF doub 415 n n 
C10 O2 PEF sing 416 n n 
C11 C12 PEF sing 417 n n 
C11 H112 PEF sing 418 n n 
C11 H111 PEF sing 419 n n 
C12 C13 PEF sing 420 n n 
C12 H122 PEF sing 421 n n 
C12 H121 PEF sing 422 n n 
C13 C14 PEF sing 423 n n 
C13 H132 PEF sing 424 n n 
C13 H131 PEF sing 425 n n 
C14 C15 PEF sing 426 n n 
C14 H142 PEF sing 427 n n 
C14 H141 PEF sing 428 n n 
C15 C16 PEF sing 429 n n 
C15 H152 PEF sing 430 n n 
C15 H151 PEF sing 431 n n 
C16 C17 PEF sing 432 n n 
C16 H162 PEF sing 433 n n 
C16 H161 PEF sing 434 n n 
C17 C18 PEF sing 435 n n 
C17 H172 PEF sing 436 n n 
C17 H171 PEF sing 437 n n 
C18 C19 PEF sing 438 n n 
C18 H182 PEF sing 439 n n 
C18 H181 PEF sing 440 n n 
C19 C20 PEF sing 441 n n 
C19 H192 PEF sing 442 n n 
C19 H191 PEF sing 443 n n 
C20 C21 PEF sing 444 n n 
C20 H202 PEF sing 445 n n 
C20 H201 PEF sing 446 n n 
C21 C22 PEF sing 447 n n 
C21 H212 PEF sing 448 n n 
C21 H211 PEF sing 449 n n 
C22 C23 PEF sing 450 n n 
C22 H222 PEF sing 451 n n 
C22 H221 PEF sing 452 n n 
C23 C24 PEF sing 453 n n 
C23 H232 PEF sing 454 n n 
C23 H231 PEF sing 455 n n 
C24 C25 PEF sing 456 n n 
C24 H242 PEF sing 457 n n 
C24 H241 PEF sing 458 n n 
C25 H252 PEF sing 459 n n 
C25 H251 PEF sing 460 n n 
C25 H253 PEF sing 461 n n 
C30 C31 PEF sing 462 n n 
C30 O5 PEF doub 463 n n 
C30 O3 PEF sing 464 n n 
C31 C32 PEF sing 465 n n 
C31 H312 PEF sing 466 n n 
C31 H311 PEF sing 467 n n 
C32 C33 PEF sing 468 n n 
C32 H322 PEF sing 469 n n 
C32 H321 PEF sing 470 n n 
C33 C34 PEF sing 471 n n 
C33 H332 PEF sing 472 n n 
C33 H331 PEF sing 473 n n 
C34 C35 PEF sing 474 n n 
C34 H342 PEF sing 475 n n 
C34 H341 PEF sing 476 n n 
C35 C36 PEF sing 477 n n 
C35 H352 PEF sing 478 n n 
C35 H351 PEF sing 479 n n 
C36 C37 PEF sing 480 n n 
C36 H362 PEF sing 481 n n 
C36 H361 PEF sing 482 n n 
C37 C38 PEF sing 483 n n 
C37 H372 PEF sing 484 n n 
C37 H371 PEF sing 485 n n 
C38 C39 PEF sing 486 n n 
C38 H382 PEF sing 487 n n 
C38 H381 PEF sing 488 n n 
C39 C40 PEF sing 489 n n 
C39 H392 PEF sing 490 n n 
C39 H391 PEF sing 491 n n 
C40 C41 PEF sing 492 n n 
C40 H402 PEF sing 493 n n 
C40 H401 PEF sing 494 n n 
C41 C42 PEF sing 495 n n 
C41 H412 PEF sing 496 n n 
C41 H411 PEF sing 497 n n 
C42 C43 PEF sing 498 n n 
C42 H422 PEF sing 499 n n 
C42 H421 PEF sing 500 n n 
C43 C44 PEF sing 501 n n 
C43 H432 PEF sing 502 n n 
C43 H431 PEF sing 503 n n 
C44 C45 PEF sing 504 n n 
C44 H442 PEF sing 505 n n 
C44 H441 PEF sing 506 n n 
C45 H452 PEF sing 507 n n 
C45 H451 PEF sing 508 n n 
C45 H453 PEF sing 509 n n 
O1P P PEF doub 510 n n 
O2P P PEF sing 511 n n 
O2P HOP2 PEF sing 512 n n 
O3P P PEF sing 513 n n 
O4P P PEF sing 514 n n 
#
_atom_sites.entry_id                     8VJL 
_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
I 3 LMN A 1 401 301 LMN LMN . 
J 4 PEF A 1 402 302 PEF PEF . 
K 3 LMN C 1 401 301 LMN LMN . 
L 3 LMN E 1 401 301 LMN LMN . 
M 4 PEF E 1 402 302 PEF PEF . 
N 3 LMN G 1 401 301 LMN LMN . 
#
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 C2 PEF . . . J 4 148.772 169.139 114.287 1 30.08 ? C2 PEF 402 A 1 
HETATM 2 C C1 PEF . . . J 4 149.426 168.605 113.017 1 30.08 ? C1 PEF 402 A 1 
HETATM 3 N N PEF . . . J 4 153.449 171.591 110.023 1 30.08 ? N PEF 402 A 1 
HETATM 4 C C3 PEF . . . J 4 148.101 167.987 115.032 1 30.08 ? C3 PEF 402 A 1 
HETATM 5 C C4 PEF . . . J 4 151.584 170.041 109.947 1 30.08 ? C4 PEF 402 A 1 
HETATM 6 C C5 PEF . . . J 4 152.235 171.263 109.301 1 30.08 ? C5 PEF 402 A 1 
HETATM 7 C C10 PEF . . . J 4 149.175 170.437 116.179 1 30.08 ? C10 PEF 402 A 1 
HETATM 8 C C11 PEF . . . J 4 149.834 170.415 117.556 1 30.08 ? C11 PEF 402 A 1 
HETATM 9 C C12 PEF . . . J 4 149.05 171.322 118.504 1 30.08 ? C12 PEF 402 A 1 
HETATM 10 C C13 PEF . . . J 4 149.553 172.759 118.393 1 30.08 ? C13 PEF 402 A 1 
HETATM 11 C C14 PEF . . . J 4 150.858 172.898 119.174 1 30.08 ? C14 PEF 402 A 1 
HETATM 12 C C15 PEF . . . J 4 150.694 173.975 120.245 1 30.08 ? C15 PEF 402 A 1 
HETATM 13 C C16 PEF . . . J 4 149.962 173.389 121.452 1 30.08 ? C16 PEF 402 A 1 
HETATM 14 C C17 PEF . . . J 4 148.878 174.36 121.918 1 30.08 ? C17 PEF 402 A 1 
HETATM 15 C C18 PEF . . . J 4 149.492 175.733 122.183 1 30.08 ? C18 PEF 402 A 1 
HETATM 16 C C19 PEF . . . J 4 148.393 176.714 122.586 1 30.08 ? C19 PEF 402 A 1 
HETATM 17 C C20 PEF . . . J 4 147.358 176.804 121.465 1 30.08 ? C20 PEF 402 A 1 
HETATM 18 C C21 PEF . . . J 4 146.943 178.26 121.261 1 30.08 ? C21 PEF 402 A 1 
HETATM 19 C C22 PEF . . . J 4 146.286 178.787 122.535 1 30.08 ? C22 PEF 402 A 1 
HETATM 20 C C23 PEF . . . J 4 145.53 180.078 122.228 1 30.08 ? C23 PEF 402 A 1 
HETATM 21 C C24 PEF . . . J 4 146.467 181.07 121.539 1 30.08 ? C24 PEF 402 A 1 
HETATM 22 C C25 PEF . . . J 4 145.883 182.477 121.639 1 30.08 ? C25 PEF 402 A 1 
HETATM 23 C C30 PEF . . . J 4 145.873 167.216 115.014 1 30.08 ? C30 PEF 402 A 1 
HETATM 24 C C31 PEF . . . J 4 145.959 166.885 116.501 1 30.08 ? C31 PEF 402 A 1 
HETATM 25 C C32 PEF . . . J 4 144.833 167.607 117.237 1 30.08 ? C32 PEF 402 A 1 
HETATM 26 C C33 PEF . . . J 4 145.044 169.116 117.132 1 30.08 ? C33 PEF 402 A 1 
HETATM 27 C C34 PEF . . . J 4 143.71 169.799 116.844 1 30.08 ? C34 PEF 402 A 1 
HETATM 28 C C35 PEF . . . J 4 143.895 170.787 115.697 1 30.08 ? C35 PEF 402 A 1 
HETATM 29 C C36 PEF . . . J 4 144.112 172.19 116.257 1 30.08 ? C36 PEF 402 A 1 
HETATM 30 C C37 PEF . . . J 4 142.843 172.646 116.969 1 30.08 ? C37 PEF 402 A 1 
HETATM 31 C C38 PEF . . . J 4 143.207 173.529 118.159 1 30.08 ? C38 PEF 402 A 1 
HETATM 32 C C39 PEF . . . J 4 144.041 172.723 119.149 1 30.08 ? C39 PEF 402 A 1 
HETATM 33 C C40 PEF . . . J 4 144.548 173.641 120.257 1 30.08 ? C40 PEF 402 A 1 
HETATM 34 C C41 PEF . . . J 4 143.378 174.399 120.88 1 30.08 ? C41 PEF 402 A 1 
HETATM 35 C C42 PEF . . . J 4 143.223 174.023 122.354 1 30.08 ? C42 PEF 402 A 1 
HETATM 36 C C43 PEF . . . J 4 144.585 173.731 122.982 1 30.08 ? C43 PEF 402 A 1 
HETATM 37 C C44 PEF . . . J 4 144.4 173.273 124.427 1 30.08 ? C44 PEF 402 A 1 
HETATM 38 C C45 PEF . . . J 4 144.443 174.483 125.356 1 30.08 ? C45 PEF 402 A 1 
HETATM 39 O O4 PEF . . . J 4 148.177 171.051 116.015 1 30.08 ? O4 PEF 402 A 1 
HETATM 40 O O5 PEF . . . J 4 144.82 167.211 114.477 1 30.08 ? O5 PEF 402 A 1 
HETATM 41 O O2 PEF . . . J 4 149.737 169.725 115.114 1 30.08 ? O2 PEF 402 A 1 
HETATM 42 O O3 PEF . . . J 4 147.021 167.525 114.276 1 30.08 ? O3 PEF 402 A 1 
HETATM 43 O O1P PEF . . . J 4 149.646 167.588 110.386 1 30.08 ? O1P PEF 402 A 1 
HETATM 44 O O2P PEF . . . J 4 147.823 169.168 109.925 1 30.08 ? O2P PEF 402 A 1 
HETATM 45 O O3P PEF . . . J 4 149.309 169.559 112.003 1 30.08 ? O3P PEF 402 A 1 
HETATM 46 O O4P PEF . . . J 4 150.255 169.938 109.527 1 30.08 ? O4P PEF 402 A 1 
HETATM 47 P P PEF . . . J 4 149.231 169.034 110.446 1 30.08 ? P PEF 402 A 1 
#
_model_server_stats.io_time_ms              59 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    51 
_model_server_stats.query_time_ms           323 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           47 
#