data_7D6X
#
_model_server_result.job_id            K4P8ODU4ZnaSvkFvVHpa1Q 
_model_server_result.datetime_utc      '2024-10-19 09:27:03' 
_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          7d6x 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":301}' 
#
_entry.id    7D6X 
#
_exptl.entry_id    7D6X 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              720.012 
_entity.id                          8 
_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    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            7D6X 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7D6X 
_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    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      8 
_struct_asym.id                             H 
_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 B SG CYS 54 B CYS 54 1_555 E FE1 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? 
metalc ? metalc2 B SG CYS 59 B CYS 59 1_555 E FE1 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.366 ? 
metalc ? metalc3 B SG CYS 62 B CYS 62 1_555 E FE2 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.439 ? 
metalc ? metalc4 B SG CYS 74 B CYS 74 1_555 E FE2 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.526 ? 
metalc ? metalc5 B SG CYS 145 B CYS 145 1_555 F FE2 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? 
metalc ? metalc6 B SG CYS 148 B CYS 148 1_555 F FE3 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? 
metalc ? metalc7 B SG CYS 151 B CYS 151 1_555 F FE1 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? 
metalc ? metalc8 B SG CYS 155 B CYS 155 1_555 G FE3 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? 
metalc ? metalc9 B SG CYS 203 B CYS 203 1_555 G FE1 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? 
metalc ? metalc10 B O LYS 207 B LYS 207 1_555 G FE4 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.764 ? 
metalc ? metalc11 B SG CYS 209 B CYS 209 1_555 G FE4 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? 
metalc ? metalc12 B SG CYS 213 B CYS 213 1_555 F FE4 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.366 ? 
metalc ? metalc13 C SG CYS 114 C CYS 114 1_555 I FE2 FES . C FES 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? 
metalc ? metalc14 C NE2 HIS 155 C HIS 155 1_555 I FE1 FES . C FES 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.818 ? 
metalc ? metalc15 C SG CYS 206 C CYS 206 1_555 I FE1 FES . C FES 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.46 ? 
metalc ? metalc16 C NE2 HIS 240 C HIS 240 1_555 I FE2 FES . C FES 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.851 ? 
#
_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 339 n n 
C48 H481 PEV sing 340 n n 
C48 H482 PEV sing 341 n n 
C48 H483 PEV sing 342 n n 
C47 C46 PEV sing 343 n n 
C47 H471 PEV sing 344 n n 
C47 H472 PEV sing 345 n n 
C46 C45 PEV sing 346 n n 
C46 H461 PEV sing 347 n n 
C46 H462 PEV sing 348 n n 
C45 C44 PEV sing 349 n n 
C45 H451 PEV sing 350 n n 
C45 H452 PEV sing 351 n n 
C44 C43 PEV sing 352 n n 
C44 H441 PEV sing 353 n n 
C44 H442 PEV sing 354 n n 
C43 C42 PEV sing 355 n n 
C43 H431 PEV sing 356 n n 
C43 H432 PEV sing 357 n n 
C42 C41 PEV sing 358 n n 
C42 H421 PEV sing 359 n n 
C42 H422 PEV sing 360 n n 
C41 C40 PEV sing 361 n n 
C41 H411 PEV sing 362 n n 
C41 H412 PEV sing 363 n n 
C40 C39 PEV sing 364 n n 
C40 H401 PEV sing 365 n n 
C40 H402 PEV sing 366 n n 
C39 C38 PEV sing 367 n n 
C39 H391 PEV sing 368 n n 
C39 H392 PEV sing 369 n n 
C38 C37 PEV sing 370 n n 
C38 H381 PEV sing 371 n n 
C38 H382 PEV sing 372 n n 
C37 C36 PEV sing 373 n n 
C37 H371 PEV sing 374 n n 
C37 H372 PEV sing 375 n n 
C36 C35 PEV sing 376 n n 
C36 H361 PEV sing 377 n n 
C36 H362 PEV sing 378 n n 
C35 C34 PEV sing 379 n n 
C35 H351 PEV sing 380 n n 
C35 H352 PEV sing 381 n n 
C34 C33 PEV sing 382 n n 
C34 H341 PEV sing 383 n n 
C34 H342 PEV sing 384 n n 
C33 C32 PEV sing 385 n n 
C33 H331 PEV sing 386 n n 
C33 H332 PEV sing 387 n n 
C32 C31 PEV sing 388 n n 
C32 H321 PEV sing 389 n n 
C32 H322 PEV sing 390 n n 
C31 O31 PEV doub 391 n n 
C31 O2 PEV sing 392 n n 
O2 C2 PEV sing 393 n n 
C2 C1 PEV sing 394 n n 
C2 C3 PEV sing 395 n n 
C2 H2 PEV sing 396 n n 
C1 O3P PEV sing 397 n n 
C1 H11 PEV sing 398 n n 
C1 H12 PEV sing 399 n n 
O3P P PEV sing 400 n n 
P O1P PEV doub 401 n n 
P O2P PEV sing 402 n n 
P O4P PEV sing 403 n n 
O2P HO2P PEV sing 404 n n 
O4P C4 PEV sing 405 n n 
C4 C5 PEV sing 406 n n 
C4 H41 PEV sing 407 n n 
C4 H42 PEV sing 408 n n 
C5 N6 PEV sing 409 n n 
C5 H51 PEV sing 410 n n 
C5 H52 PEV sing 411 n n 
N6 HN61 PEV sing 412 n n 
N6 HN62 PEV sing 413 n n 
C3 O3 PEV sing 414 n n 
C3 H31 PEV sing 415 n n 
C3 H32 PEV sing 416 n n 
O3 C11 PEV sing 417 n n 
C11 O11 PEV doub 418 n n 
C11 C12 PEV sing 419 n n 
C12 C13 PEV sing 420 n n 
C12 H121 PEV sing 421 n n 
C12 H122 PEV sing 422 n n 
C13 C14 PEV sing 423 n n 
C13 H131 PEV sing 424 n n 
C13 H132 PEV sing 425 n n 
C14 C15 PEV sing 426 n n 
C14 H141 PEV sing 427 n n 
C14 H142 PEV sing 428 n n 
C15 C16 PEV sing 429 n n 
C15 H151 PEV sing 430 n n 
C15 H152 PEV sing 431 n n 
C16 C17 PEV sing 432 n n 
C16 H161 PEV sing 433 n n 
C16 H162 PEV sing 434 n n 
C17 C18 PEV sing 435 n n 
C17 H171 PEV sing 436 n n 
C17 H172 PEV sing 437 n n 
C18 C19 PEV sing 438 n n 
C18 H181 PEV sing 439 n n 
C18 H182 PEV sing 440 n n 
C19 C20 PEV sing 441 n n 
C19 H191 PEV sing 442 n n 
C19 H192 PEV sing 443 n n 
C20 C21 PEV sing 444 n n 
C20 H201 PEV sing 445 n n 
C20 H202 PEV sing 446 n n 
C21 C22 PEV sing 447 n n 
C21 H211 PEV sing 448 n n 
C21 H212 PEV sing 449 n n 
C22 C23 PEV sing 450 n n 
C22 H221 PEV sing 451 n n 
C22 H222 PEV sing 452 n n 
C23 C24 PEV sing 453 n n 
C23 H231 PEV sing 454 n n 
C23 H232 PEV sing 455 n n 
C24 C25 PEV sing 456 n n 
C24 H241 PEV sing 457 n n 
C24 H242 PEV sing 458 n n 
C25 C26 PEV sing 459 n n 
C25 H251 PEV sing 460 n n 
C25 H252 PEV sing 461 n n 
C26 H261 PEV sing 462 n n 
C26 H262 PEV sing 463 n n 
C26 H263 PEV sing 464 n n 
#
_atom_sites.entry_id                     7D6X 
_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
D 4 FAD A 1 701 701 FAD FAD . 
E 5 FES B 1 301 301 FES FES . 
F 6 SF4 B 1 302 302 SF4 SF4 . 
G 7 F3S B 1 303 303 F3S F3S . 
H 8 PEV C 1 301 301 PEV PEV . 
I 5 FES C 1 302 302 FES FES . 
#
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 . . . H 8 158.366 162.753 177.736 1 50.82 ? C48 PEV 301 C 1 
HETATM 2 C C47 PEV . . . H 8 159.867 163.007 177.849 1 50.82 ? C47 PEV 301 C 1 
HETATM 3 C C46 PEV . . . H 8 160.446 163.518 176.535 1 50.82 ? C46 PEV 301 C 1 
HETATM 4 C C45 PEV . . . H 8 161.551 164.537 176.771 1 50.82 ? C45 PEV 301 C 1 
HETATM 5 C C44 PEV . . . H 8 160.977 165.947 176.753 1 50.82 ? C44 PEV 301 C 1 
HETATM 6 C C43 PEV . . . H 8 161.938 166.951 177.37 1 50.82 ? C43 PEV 301 C 1 
HETATM 7 C C42 PEV . . . H 8 162.092 168.177 176.483 1 50.82 ? C42 PEV 301 C 1 
HETATM 8 C C41 PEV . . . H 8 163.555 168.422 176.158 1 50.82 ? C41 PEV 301 C 1 
HETATM 9 C C40 PEV . . . H 8 163.798 169.863 175.741 1 50.82 ? C40 PEV 301 C 1 
HETATM 10 C C39 PEV . . . H 8 165.252 170.247 175.962 1 50.82 ? C39 PEV 301 C 1 
HETATM 11 C C38 PEV . . . H 8 166.112 169.549 174.924 1 50.82 ? C38 PEV 301 C 1 
HETATM 12 C C37 PEV . . . H 8 166.169 170.354 173.636 1 50.82 ? C37 PEV 301 C 1 
HETATM 13 C C36 PEV . . . H 8 167.407 169.994 172.83 1 50.82 ? C36 PEV 301 C 1 
HETATM 14 C C35 PEV . . . H 8 167.348 170.533 171.409 1 50.82 ? C35 PEV 301 C 1 
HETATM 15 C C34 PEV . . . H 8 168.757 170.754 170.884 1 50.82 ? C34 PEV 301 C 1 
HETATM 16 C C33 PEV . . . H 8 169.579 171.58 171.863 1 50.82 ? C33 PEV 301 C 1 
HETATM 17 C C32 PEV . . . H 8 170.891 170.889 172.201 1 50.82 ? C32 PEV 301 C 1 
HETATM 18 C C31 PEV . . . H 8 172.019 171.406 171.319 1 50.82 ? C31 PEV 301 C 1 
HETATM 19 O O31 PEV . . . H 8 171.788 171.693 170.197 1 50.82 ? O31 PEV 301 C 1 
HETATM 20 O O2 PEV . . . H 8 173.314 171.532 171.828 1 50.82 ? O2 PEV 301 C 1 
HETATM 21 C C2 PEV . . . H 8 173.788 172.845 171.849 1 50.82 ? C2 PEV 301 C 1 
HETATM 22 C C1 PEV . . . H 8 175.011 172.959 170.946 1 50.82 ? C1 PEV 301 C 1 
HETATM 23 O O3P PEV . . . H 8 174.596 173.125 169.624 1 50.82 ? O3P PEV 301 C 1 
HETATM 24 P P PEV . . . H 8 174.922 171.903 168.576 1 50.82 ? P PEV 301 C 1 
HETATM 25 O O1P PEV . . . H 8 173.699 171.04 168.407 1 50.82 ? O1P PEV 301 C 1 
HETATM 26 O O2P PEV . . . H 8 176.05 171.07 169.135 1 50.82 ? O2P PEV 301 C 1 
HETATM 27 O O4P PEV . . . H 8 175.36 172.519 167.116 1 50.82 ? O4P PEV 301 C 1 
HETATM 28 C C4 PEV . . . H 8 174.409 172.522 166.095 1 50.82 ? C4 PEV 301 C 1 
HETATM 29 C C5 PEV . . . H 8 174.345 173.95 165.568 1 50.82 ? C5 PEV 301 C 1 
HETATM 30 N N6 PEV . . . H 8 175.54 174.675 165.957 1 50.82 ? N6 PEV 301 C 1 
HETATM 31 C C3 PEV . . . H 8 174.176 173.224 173.276 1 50.82 ? C3 PEV 301 C 1 
HETATM 32 O O3 PEV . . . H 8 175.28 172.457 173.666 1 50.82 ? O3 PEV 301 C 1 
HETATM 33 C C11 PEV . . . H 8 176.393 173.218 174.037 1 50.82 ? C11 PEV 301 C 1 
HETATM 34 O O11 PEV . . . H 8 176.927 173.916 173.247 1 50.82 ? O11 PEV 301 C 1 
HETATM 35 C C12 PEV . . . H 8 176.915 173.169 175.468 1 50.82 ? C12 PEV 301 C 1 
HETATM 36 C C13 PEV . . . H 8 177.117 171.749 175.983 1 50.82 ? C13 PEV 301 C 1 
HETATM 37 C C14 PEV . . . H 8 178.134 171.723 177.119 1 50.82 ? C14 PEV 301 C 1 
HETATM 38 C C15 PEV . . . H 8 177.502 171.265 178.429 1 50.82 ? C15 PEV 301 C 1 
HETATM 39 C C16 PEV . . . H 8 178.46 170.429 179.27 1 50.82 ? C16 PEV 301 C 1 
HETATM 40 C C17 PEV . . . H 8 177.751 169.252 179.932 1 50.82 ? C17 PEV 301 C 1 
HETATM 41 C C18 PEV . . . H 8 176.671 168.645 179.038 1 50.82 ? C18 PEV 301 C 1 
HETATM 42 C C19 PEV . . . H 8 176.986 167.186 178.729 1 50.82 ? C19 PEV 301 C 1 
HETATM 43 C C20 PEV . . . H 8 175.806 166.255 178.985 1 50.82 ? C20 PEV 301 C 1 
HETATM 44 C C21 PEV . . . H 8 176.284 164.819 179.173 1 50.82 ? C21 PEV 301 C 1 
HETATM 45 C C22 PEV . . . H 8 175.235 163.792 178.765 1 50.82 ? C22 PEV 301 C 1 
HETATM 46 C C23 PEV . . . H 8 174.618 163.064 179.958 1 50.82 ? C23 PEV 301 C 1 
HETATM 47 C C24 PEV . . . H 8 174.12 161.675 179.566 1 50.82 ? C24 PEV 301 C 1 
HETATM 48 C C25 PEV . . . H 8 172.609 161.537 179.716 1 50.82 ? C25 PEV 301 C 1 
HETATM 49 C C26 PEV . . . H 8 171.997 160.719 178.583 1 50.82 ? C26 PEV 301 C 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           338 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           49 
#