data_8VP3
#
_model_server_result.job_id            Ld92t_eXCiW2rkhhDFojbQ 
_model_server_result.datetime_utc      '2024-12-26 10:16:45' 
_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          8vp3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":803}' 
#
_entry.id    8VP3 
#
_exptl.entry_id    8VP3 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              760.076 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate' 
_entity.pdbx_number_of_molecules    1 
_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            8VP3 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8VP3 
_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_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      6 
_struct_asym.id                             J 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_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
_struct_conn.pdbx_value_order
metalc ? metalc1 A OG1 THR 549 A THR 526 1_555 F MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? 
metalc ? metalc2 E O3B ADP . A ADP 801 1_555 F MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? 
metalc ? metalc3 C OG1 THR 549 B THR 526 1_555 I MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? 
metalc ? metalc4 C OE1 GLN 590 B GLN 567 1_555 I MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.666 ? 
metalc ? metalc5 H O3B ADP . B ADP 801 1_555 I MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
#
_chem_comp.formula           'C42 H82 N O8 P' 
_chem_comp.formula_weight    760.076 
_chem_comp.id                POV 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     POPC 
#
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
N C12 POV sing 384 n n 
N C13 POV sing 385 n n 
N C14 POV sing 386 n n 
N C15 POV sing 387 n n 
P O11 POV sing 388 n n 
P O12 POV sing 389 n n 
P O13 POV sing 390 n n 
P O14 POV doub 391 n n 
C1 C2 POV sing 392 n n 
C1 O11 POV sing 393 n n 
C1 H1 POV sing 394 n n 
C1 H1A POV sing 395 n n 
C2 C3 POV sing 396 n n 
C2 O21 POV sing 397 n n 
C2 H2 POV sing 398 n n 
C3 O31 POV sing 399 n n 
C3 H3 POV sing 400 n n 
C3 H3A POV sing 401 n n 
C210 C211 POV sing 402 n n 
C210 C29 POV doub 403 z n 
C210 H210 POV sing 404 n n 
C310 C311 POV sing 405 n n 
C310 C39 POV sing 406 n n 
C310 H310 POV sing 407 n n 
C310 H31A POV sing 408 n n 
C11 C12 POV sing 409 n n 
C11 O12 POV sing 410 n n 
C11 H11 POV sing 411 n n 
C11 H11A POV sing 412 n n 
C211 C212 POV sing 413 n n 
C211 H211 POV sing 414 n n 
C211 H21A POV sing 415 n n 
C311 C312 POV sing 416 n n 
C311 H311 POV sing 417 n n 
C311 H31B POV sing 418 n n 
C12 H12 POV sing 419 n n 
C12 H12A POV sing 420 n n 
C212 C213 POV sing 421 n n 
C212 H212 POV sing 422 n n 
C212 H21B POV sing 423 n n 
C312 C313 POV sing 424 n n 
C312 H312 POV sing 425 n n 
C312 H31C POV sing 426 n n 
C13 H13 POV sing 427 n n 
C13 H13A POV sing 428 n n 
C13 H13B POV sing 429 n n 
C213 C214 POV sing 430 n n 
C213 H213 POV sing 431 n n 
C213 H21C POV sing 432 n n 
C313 C314 POV sing 433 n n 
C313 H313 POV sing 434 n n 
C313 H31D POV sing 435 n n 
C14 H14 POV sing 436 n n 
C14 H14A POV sing 437 n n 
C14 H14B POV sing 438 n n 
C214 C215 POV sing 439 n n 
C214 H214 POV sing 440 n n 
C214 H21D POV sing 441 n n 
C314 C315 POV sing 442 n n 
C314 H314 POV sing 443 n n 
C314 H31E POV sing 444 n n 
C15 H15 POV sing 445 n n 
C15 H15A POV sing 446 n n 
C15 H15B POV sing 447 n n 
C215 C216 POV sing 448 n n 
C215 H215 POV sing 449 n n 
C215 H21E POV sing 450 n n 
C315 C316 POV sing 451 n n 
C315 H315 POV sing 452 n n 
C315 H31F POV sing 453 n n 
C216 C217 POV sing 454 n n 
C216 H216 POV sing 455 n n 
C216 H21F POV sing 456 n n 
C316 H316 POV sing 457 n n 
C316 H31G POV sing 458 n n 
C316 H31H POV sing 459 n n 
C217 C218 POV sing 460 n n 
C217 H217 POV sing 461 n n 
C217 H21G POV sing 462 n n 
C218 H218 POV sing 463 n n 
C218 H21H POV sing 464 n n 
C218 H21J POV sing 465 n n 
C21 O21 POV sing 466 n n 
C21 C22 POV sing 467 n n 
C21 O22 POV doub 468 n n 
C22 C23 POV sing 469 n n 
C22 H22 POV sing 470 n n 
C22 H22A POV sing 471 n n 
C23 C24 POV sing 472 n n 
C23 H23 POV sing 473 n n 
C23 H23A POV sing 474 n n 
C24 C25 POV sing 475 n n 
C24 H24 POV sing 476 n n 
C24 H24A POV sing 477 n n 
C25 C26 POV sing 478 n n 
C25 H25 POV sing 479 n n 
C25 H25A POV sing 480 n n 
C26 C27 POV sing 481 n n 
C26 H26 POV sing 482 n n 
C26 H26A POV sing 483 n n 
C27 C28 POV sing 484 n n 
C27 H27 POV sing 485 n n 
C27 H27A POV sing 486 n n 
C28 C29 POV sing 487 n n 
C28 H28 POV sing 488 n n 
C28 H28A POV sing 489 n n 
C29 H29 POV sing 490 n n 
C31 O31 POV sing 491 n n 
C31 C32 POV sing 492 n n 
C31 O32 POV doub 493 n n 
C32 C33 POV sing 494 n n 
C32 H32 POV sing 495 n n 
C32 H32A POV sing 496 n n 
C33 C34 POV sing 497 n n 
C33 H33 POV sing 498 n n 
C33 H33A POV sing 499 n n 
C34 C35 POV sing 500 n n 
C34 H34 POV sing 501 n n 
C34 H34A POV sing 502 n n 
C35 C36 POV sing 503 n n 
C35 H35 POV sing 504 n n 
C35 H35A POV sing 505 n n 
C36 C37 POV sing 506 n n 
C36 H36 POV sing 507 n n 
C36 H36A POV sing 508 n n 
C37 C38 POV sing 509 n n 
C37 H37 POV sing 510 n n 
C37 H37A POV sing 511 n n 
C38 C39 POV sing 512 n n 
C38 H38 POV sing 513 n n 
C38 H38A POV sing 514 n n 
C39 H39 POV sing 515 n n 
C39 H39A POV sing 516 n n 
#
_atom_sites.entry_id                     8VP3 
_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 3 ADP A 1 801 801 ADP ADP . 
F 4 MG A 1 802 802 MG MG . 
G 5 A1ACX A 1 803 803 A1ACX FAA . 
H 3 ADP B 1 801 801 ADP ADP . 
I 4 MG B 1 802 802 MG MG . 
J 6 POV B 1 803 803 POV EPC . 
#
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 N N POV . . . J 6 112.076 96.604 163.043 1 100.6 ? N POV 803 B 1 
HETATM 2 P P POV . . . J 6 111.287 96.939 158.646 1 111.47 ? P POV 803 B 1 
HETATM 3 C C1 POV . . . J 6 111.409 95.778 156.288 1 95.58 ? C1 POV 803 B 1 
HETATM 4 C C2 POV . . . J 6 110.577 95.506 155.019 1 97.1 ? C2 POV 803 B 1 
HETATM 5 C C3 POV . . . J 6 109.35 96.436 154.904 1 97.52 ? C3 POV 803 B 1 
HETATM 6 C C210 POV . . . J 6 107.632 93.889 147.7 1 96.1 ? C210 POV 803 B 1 
HETATM 7 C C310 POV . . . J 6 106.624 99.365 144.859 1 88.41 ? C310 POV 803 B 1 
HETATM 8 C C11 POV . . . J 6 110.6 96.161 161.109 1 96.88 ? C11 POV 803 B 1 
HETATM 9 O O11 POV . . . J 6 110.674 96.631 157.14 1 97.8 ? O11 POV 803 B 1 
HETATM 10 C C211 POV . . . J 6 106.172 93.474 147.391 1 92.04 ? C211 POV 803 B 1 
HETATM 11 C C311 POV . . . J 6 107.314 100.026 143.662 1 87.59 ? C311 POV 803 B 1 
HETATM 12 C C12 POV . . . J 6 111.941 96.734 161.61 1 92.57 ? C12 POV 803 B 1 
HETATM 13 O O12 POV . . . J 6 110.709 95.821 159.726 1 100.07 ? O12 POV 803 B 1 
HETATM 14 C C212 POV . . . J 6 105.792 93.797 145.926 1 94.66 ? C212 POV 803 B 1 
HETATM 15 C C312 POV . . . J 6 106.426 101.097 143.019 1 87.28 ? C312 POV 803 B 1 
HETATM 16 C C13 POV . . . J 6 112.243 95.216 163.382 1 97.11 ? C13 POV 803 B 1 
HETATM 17 O O13 POV . . . J 6 112.8 96.855 158.582 1 97.78 ? O13 POV 803 B 1 
HETATM 18 C C213 POV . . . J 6 105.898 92.553 145.005 1 96.53 ? C213 POV 803 B 1 
HETATM 19 C C313 POV . . . J 6 106.981 101.61 141.692 1 89.77 ? C313 POV 803 B 1 
HETATM 20 C C14 POV . . . J 6 110.912 97.126 163.706 1 97.6 ? C14 POV 803 B 1 
HETATM 21 O O14 POV . . . J 6 110.867 98.329 159.078 1 100.19 ? O14 POV 803 B 1 
HETATM 22 C C214 POV . . . J 6 105.443 92.83 143.556 1 96.97 ? C214 POV 803 B 1 
HETATM 23 C C314 POV . . . J 6 105.966 101.455 140.562 1 94.18 ? C314 POV 803 B 1 
HETATM 24 C C15 POV . . . J 6 113.236 97.339 163.479 1 95.83 ? C15 POV 803 B 1 
HETATM 25 C C215 POV . . . J 6 105.324 94.336 143.232 1 94.06 ? C215 POV 803 B 1 
HETATM 26 C C315 POV . . . J 6 104.78 102.425 140.699 1 92.6 ? C315 POV 803 B 1 
HETATM 27 C C216 POV . . . J 6 106.012 94.699 141.904 1 89.42 ? C216 POV 803 B 1 
HETATM 28 C C316 POV . . . J 6 103.707 102.189 139.628 1 89.37 ? C316 POV 803 B 1 
HETATM 29 C C217 POV . . . J 6 105.388 95.924 141.228 1 91.52 ? C217 POV 803 B 1 
HETATM 30 C C218 POV . . . J 6 103.879 96.015 141.447 1 90.25 ? C218 POV 803 B 1 
HETATM 31 C C21 POV . . . J 6 109.59 93.596 153.931 1 97.25 ? C21 POV 803 B 1 
HETATM 32 O O21 POV . . . J 6 110.14 94.162 155.104 1 97.12 ? O21 POV 803 B 1 
HETATM 33 C C22 POV . . . J 6 110.498 92.852 152.927 1 95.37 ? C22 POV 803 B 1 
HETATM 34 O O22 POV . . . J 6 108.428 93.685 153.717 1 96.45 ? O22 POV 803 B 1 
HETATM 35 C C23 POV . . . J 6 111.132 93.771 151.886 1 98.66 ? C23 POV 803 B 1 
HETATM 36 C C24 POV . . . J 6 110.095 94.656 151.193 1 95.32 ? C24 POV 803 B 1 
HETATM 37 C C25 POV . . . J 6 110.721 95.888 150.525 1 92.72 ? C25 POV 803 B 1 
HETATM 38 C C26 POV . . . J 6 111.092 95.644 149.042 1 95.72 ? C26 POV 803 B 1 
HETATM 39 C C27 POV . . . J 6 110.317 94.452 148.421 1 95.61 ? C27 POV 803 B 1 
HETATM 40 C C28 POV . . . J 6 109.892 94.732 146.965 1 92.97 ? C28 POV 803 B 1 
HETATM 41 C C29 POV . . . J 6 108.43 94.31 146.694 1 93.7 ? C29 POV 803 B 1 
HETATM 42 C C31 POV . . . J 6 108.871 98.512 153.851 1 96.37 ? C31 POV 803 B 1 
HETATM 43 O O31 POV . . . J 6 109.812 97.729 154.559 1 96.66 ? O31 POV 803 B 1 
HETATM 44 C C32 POV . . . J 6 108.88 98.513 152.31 1 93.98 ? C32 POV 803 B 1 
HETATM 45 O O32 POV . . . J 6 108.08 99.168 154.439 1 98.53 ? O32 POV 803 B 1 
HETATM 46 C C33 POV . . . J 6 107.47 98.384 151.716 1 96.13 ? C33 POV 803 B 1 
HETATM 47 C C34 POV . . . J 6 107.432 97.446 150.494 1 92.56 ? C34 POV 803 B 1 
HETATM 48 C C35 POV . . . J 6 107.451 98.202 149.159 1 92.2 ? C35 POV 803 B 1 
HETATM 49 C C36 POV . . . J 6 106.069 98.712 148.757 1 94.9 ? C36 POV 803 B 1 
HETATM 50 C C37 POV . . . J 6 105.672 98.35 147.319 1 94.44 ? C37 POV 803 B 1 
HETATM 51 C C38 POV . . . J 6 106.707 97.472 146.581 1 94.35 ? C38 POV 803 B 1 
HETATM 52 C C39 POV . . . J 6 107.459 98.238 145.474 1 89.59 ? C39 POV 803 B 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    13 
_model_server_stats.query_time_ms           349 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           52 
#