data_5WIE # _model_server_result.job_id qjxxnyfKG0MMJdEFgmzaHg _model_server_result.datetime_utc '2024-10-18 20:22:01' _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 5wie # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":504}' # _entry.id 5WIE # _exptl.entry_id 5WIE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 749.007 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate' _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 5WIE _cell.length_a 143.124 _cell.length_b 143.124 _cell.length_c 284.51 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WIE _symmetry.cell_setting ? _symmetry.Int_Tables_number 90 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 4 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA octameric 8 author_and_software_defined_assembly 1 PISA octameric 8 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H,I,J,K,L,M,N 1 1,2,3,4 C,D,O,P,Q,R,S,T 2 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 143.124 0 3 'crystal symmetry operation' 3_555 -y+1/2,x+1/2,z 0 -1 0 1 0 0 0 0 1 71.562 71.562 0 4 'crystal symmetry operation' 4_455 y-1/2,-x+1/2,z 0 1 0 -1 0 0 0 0 1 -71.562 71.562 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 P N 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 O THR 407 B THR 370 1_555 L K K . B K 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.669 ? metalc ? metalc2 B O THR 407 B THR 370 1_555 L K K . B K 507 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.669 ? metalc ? metalc3 B O THR 407 B THR 370 1_555 M K K . B K 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.907 ? metalc ? metalc4 B OG1 THR 407 B THR 370 1_555 M K K . B K 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.955 ? metalc ? metalc5 B O THR 407 B THR 370 1_555 M K K . B K 508 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.907 ? metalc ? metalc6 B OG1 THR 407 B THR 370 1_555 M K K . B K 508 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.955 ? metalc ? metalc7 B O VAL 408 B VAL 371 1_555 K K K . B K 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.721 ? metalc ? metalc8 B O VAL 408 B VAL 371 1_555 K K K . B K 506 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.721 ? metalc ? metalc9 B O VAL 408 B VAL 371 1_555 L K K . B K 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.744 ? metalc ? metalc10 B O VAL 408 B VAL 371 1_555 L K K . B K 507 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.744 ? metalc ? metalc11 B O GLY 409 B GLY 372 1_555 K K K . B K 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.771 ? metalc ? metalc12 B O GLY 409 B GLY 372 1_555 K K K . B K 506 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.771 ? metalc ? metalc13 D O THR 407 H THR 370 1_555 S K K . H K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.531 ? metalc ? metalc14 D O THR 407 H THR 370 1_555 S K K . H K 504 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.531 ? metalc ? metalc15 D O THR 407 H THR 370 1_555 T K K . H K 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.453 ? metalc ? metalc16 D OG1 THR 407 H THR 370 1_555 T K K . H K 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.778 ? metalc ? metalc17 D O THR 407 H THR 370 1_555 T K K . H K 505 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 3.453 ? metalc ? metalc18 D OG1 THR 407 H THR 370 1_555 T K K . H K 505 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.778 ? metalc ? metalc19 D O VAL 408 H VAL 371 1_555 R K K . H K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.967 ? metalc ? metalc20 D O VAL 408 H VAL 371 1_555 R K K . H K 503 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.967 ? metalc ? metalc21 D O VAL 408 H VAL 371 1_555 S K K . H K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.304 ? metalc ? metalc22 D O VAL 408 H VAL 371 1_555 S K K . H K 504 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 3.304 ? metalc ? metalc23 D O GLY 409 H GLY 372 1_555 Q K K . H K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.317 ? metalc ? metalc24 D O GLY 409 H GLY 372 1_555 Q K K . H K 502 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 3.317 ? metalc ? metalc25 D O GLY 409 H GLY 372 1_555 R K K . H K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? metalc ? metalc26 D O GLY 409 H GLY 372 1_555 R K K . H K 503 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? metalc ? metalc27 D O TYR 410 H TYR 373 1_555 Q K K . H K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.712 ? metalc ? metalc28 D O TYR 410 H TYR 373 1_555 Q K K . H K 502 4_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.712 ? # _chem_comp.formula 'C40 H77 O10 P' _chem_comp.formula_weight 749.007 _chem_comp.id PGW _chem_comp.mon_nstd_flag . _chem_comp.name '(1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 1-Palmitoyl-2-Oleoyl-sn-Glycero-3-[Phospho-(1-glycerol)];PHOSPHATIDYLGLYCEROL # 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 CAD C05 PGW sing 315 n n CAD HAD PGW sing 316 n n CAD HADA PGW sing 317 n n OAE CAD PGW sing 318 n n OAE HOAE PGW sing 319 n n OAF C05 PGW sing 320 n n OAF HOAF PGW sing 321 n n P O13 PGW sing 322 n n P O11 PGW sing 323 n n C01 O03 PGW sing 324 n n C01 C02 PGW sing 325 n n C01 H01 PGW sing 326 n n C01 H01A PGW sing 327 n n C1 C2 PGW sing 328 n n O01 C1 PGW sing 329 n n C02 O01 PGW sing 330 n n C02 H02 PGW sing 331 n n C2 C3 PGW sing 332 n n C2 H2 PGW sing 333 n n C2 H2A PGW sing 334 n n O02 C1 PGW doub 335 n n C03 C02 PGW sing 336 n n C03 H03 PGW sing 337 n n C03 H03A PGW sing 338 n n C3 C4 PGW sing 339 n n C3 H3 PGW sing 340 n n C3 H3A PGW sing 341 n n C04 C05 PGW sing 342 n n C04 O12 PGW sing 343 n n C04 H04 PGW sing 344 n n C04 H04A PGW sing 345 n n C4 C5 PGW sing 346 n n C4 H4 PGW sing 347 n n C4 H4A PGW sing 348 n n O04 C19 PGW doub 349 n n C05 H05 PGW sing 350 n n C5 C6 PGW sing 351 n n C5 H5 PGW sing 352 n n C5 H5A PGW sing 353 n n C06 C07 PGW sing 354 n n C06 H06 PGW sing 355 n n C06 H06A PGW sing 356 n n C6 C7 PGW sing 357 n n C6 H6 PGW sing 358 n n C6 H6A PGW sing 359 n n C07 H07 PGW sing 360 n n C07 H07A PGW sing 361 n n C7 C8 PGW sing 362 n n C7 H7 PGW sing 363 n n C7 H7A PGW sing 364 n n C08 C07 PGW sing 365 n n C08 H08 PGW sing 366 n n C08 H08A PGW sing 367 n n C8 C9 PGW sing 368 n n C8 H8 PGW sing 369 n n C8 H8A PGW sing 370 n n C09 C08 PGW sing 371 n n C09 C11 PGW sing 372 n n C09 H09 PGW sing 373 n n C09 H09A PGW sing 374 n n C9 C10 PGW doub 375 z n C10 C06 PGW sing 376 n n C11 H11 PGW sing 377 n n C11 H11A PGW sing 378 n n O11 C03 PGW sing 379 n n C12 C11 PGW sing 380 n n C12 H12 PGW sing 381 n n C12 H12A PGW sing 382 n n O12 P PGW sing 383 n n C13 C12 PGW sing 384 n n C13 C14 PGW sing 385 n n C13 H13 PGW sing 386 n n C13 H13A PGW sing 387 n n O13 HO13 PGW sing 388 n n C14 H14 PGW sing 389 n n C14 H14A PGW sing 390 n n C14 H14B PGW sing 391 n n O14 P PGW doub 392 n n C15 C16 PGW sing 393 n n C15 H15 PGW sing 394 n n C15 H15A PGW sing 395 n n C16 H16 PGW sing 396 n n C16 H16A PGW sing 397 n n C17 C16 PGW sing 398 n n C17 C18 PGW sing 399 n n C17 H17 PGW sing 400 n n C17 H17A PGW sing 401 n n C18 C28 PGW sing 402 n n C18 H18 PGW sing 403 n n C18 H18A PGW sing 404 n n C19 O03 PGW sing 405 n n C19 C20 PGW sing 406 n n C20 C21 PGW sing 407 n n C20 H20 PGW sing 408 n n C20 H20A PGW sing 409 n n C21 C22 PGW sing 410 n n C21 H21 PGW sing 411 n n C21 H21A PGW sing 412 n n C22 C23 PGW sing 413 n n C22 H22 PGW sing 414 n n C22 H22A PGW sing 415 n n C23 C24 PGW sing 416 n n C23 H23 PGW sing 417 n n C23 H23A PGW sing 418 n n C24 C25 PGW sing 419 n n C24 H24 PGW sing 420 n n C24 H24A PGW sing 421 n n C25 C26 PGW sing 422 n n C25 H25 PGW sing 423 n n C25 H25A PGW sing 424 n n C26 C27 PGW sing 425 n n C26 H26 PGW sing 426 n n C26 H26A PGW sing 427 n n C27 C15 PGW sing 428 n n C27 H27 PGW sing 429 n n C27 H27A PGW sing 430 n n C28 H28 PGW sing 431 n n C28 H28A PGW sing 432 n n C29 H29 PGW sing 433 n n C29 H29A PGW sing 434 n n C29 H29B PGW sing 435 n n C30 C28 PGW sing 436 n n C30 C29 PGW sing 437 n n C30 H30 PGW sing 438 n n C30 H30A PGW sing 439 n n C9 H9 PGW sing 440 n n C10 H10 PGW sing 441 n n # _atom_sites.entry_id 5WIE _atom_sites.fract_transf_matrix[1][1] 0.006987 _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] 0.006987 _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] 0.003515 _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 NAP A 1 1001 1001 NAP NAP . F 4 PGW B 1 501 500 PGW PGW . G 4 PGW B 1 502 501 PGW PGW . H 4 PGW B 1 503 502 PGW PGW . I 4 PGW B 1 504 506 PGW PGW . J 4 PGW B 1 505 513 PGW PGW . K 5 K B 1 506 1 K K . L 5 K B 1 507 2 K K . M 5 K B 1 508 3 K K . N 5 K B 1 509 4 K K . O 3 NAP G 1 1001 1001 NAP NAP . P 4 PGW H 1 501 500 PGW PGW . Q 5 K H 1 502 5 K K . R 5 K H 1 503 6 K K . S 5 K H 1 504 7 K K . T 5 K H 1 505 8 K K . # 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 C1 PGW . . . I 4 -11.535 63.106 161.28 1 64.21 ? C1 PGW 504 B 1 HETATM 2 C C2 PGW . . . I 4 -10.461 62.042 161.04 1 64.15 ? C2 PGW 504 B 1 HETATM 3 C C3 PGW . . . I 4 -10.511 61.013 162.171 1 64.58 ? C3 PGW 504 B 1 HETATM 4 C C4 PGW . . . I 4 -9.444 59.943 161.938 1 64.99 ? C4 PGW 504 B 1 HETATM 5 C C5 PGW . . . I 4 -9.487 58.932 163.087 1 65.45 ? C5 PGW 504 B 1 HETATM 6 C C6 PGW . . . I 4 -8.42 57.861 162.856 1 63.93 ? C6 PGW 504 B 1 HETATM 7 C C7 PGW . . . I 4 -8.436 56.858 164.011 1 62.08 ? C7 PGW 504 B 1 HETATM 8 C C8 PGW . . . I 4 -7.343 55.815 163.769 1 61.82 ? C8 PGW 504 B 1 HETATM 9 C C9 PGW . . . I 4 -7.383 54.765 164.882 1 62.1 ? C9 PGW 504 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 9 #