data_2IRV # _model_server_result.job_id j5uCRzrRXIdTzLyUMT40LA _model_server_result.datetime_utc '2025-01-28 09:07:00' _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 2irv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":5137}' # _entry.id 2IRV # _exptl.entry_id 2IRV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 749.007 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 101.03 _cell.angle_gamma 90 _cell.entry_id 2IRV _cell.length_a 49.82 _cell.length_b 69.35 _cell.length_c 67.58 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2IRV _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,Y 1 1 B,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Z 2 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 ? 5 U N N ? 5 V N N ? 5 W N N ? 5 X N N # _chem_comp.formula 'C40 H77 O10 P' _chem_comp.formula_weight 749.007 _chem_comp.id PGV _chem_comp.mon_nstd_flag . _chem_comp.name '(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms PHOSPHATIDYLGLYCEROL;2-VACCENOYL-1-PALMITOYL-SN-GLYCEROL-3-PHOSPHOGLYCEROL # 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 P O11 PGV sing 365 n n P O12 PGV sing 366 n n P O13 PGV doub 367 n n P O14 PGV sing 368 n n C01 C02 PGV sing 369 n n C01 O03 PGV sing 370 n n C01 H011 PGV sing 371 n n C01 H012 PGV sing 372 n n C02 C03 PGV sing 373 n n C02 O01 PGV sing 374 n n C02 H02 PGV sing 375 n n C03 O11 PGV sing 376 n n C03 H031 PGV sing 377 n n C03 H032 PGV sing 378 n n C04 C05 PGV sing 379 n n C04 O12 PGV sing 380 n n C04 H041 PGV sing 381 n n C04 H042 PGV sing 382 n n C05 C06 PGV sing 383 n n C05 O05 PGV sing 384 n n C05 H05 PGV sing 385 n n C06 O06 PGV sing 386 n n C06 H061 PGV sing 387 n n C06 H062 PGV sing 388 n n O01 C1 PGV sing 389 n n O02 C1 PGV doub 390 n n O03 C19 PGV sing 391 n n O04 C19 PGV doub 392 n n O05 H1 PGV sing 393 n n O06 H06 PGV sing 394 n n O14 H14 PGV sing 395 n n C1 C2 PGV sing 396 n n C2 C3 PGV sing 397 n n C2 H21 PGV sing 398 n n C2 H22 PGV sing 399 n n C3 C4 PGV sing 400 n n C3 H31 PGV sing 401 n n C3 H32 PGV sing 402 n n C4 C5 PGV sing 403 n n C4 H41 PGV sing 404 n n C4 H42 PGV sing 405 n n C5 C6 PGV sing 406 n n C5 H51 PGV sing 407 n n C5 H52 PGV sing 408 n n C6 C7 PGV sing 409 n n C6 H61 PGV sing 410 n n C6 H62 PGV sing 411 n n C7 C8 PGV sing 412 n n C7 H71 PGV sing 413 n n C7 H72 PGV sing 414 n n C8 C9 PGV sing 415 n n C8 H81 PGV sing 416 n n C8 H82 PGV sing 417 n n C9 C10 PGV sing 418 n n C9 H91 PGV sing 419 n n C9 H92 PGV sing 420 n n C10 C11 PGV sing 421 n n C10 H101 PGV sing 422 n n C10 H102 PGV sing 423 n n C11 C12 PGV doub 424 z n C11 H11 PGV sing 425 n n C12 C13 PGV sing 426 n n C12 H12 PGV sing 427 n n C13 C14 PGV sing 428 n n C13 H131 PGV sing 429 n n C13 H132 PGV sing 430 n n C14 C15 PGV sing 431 n n C14 H141 PGV sing 432 n n C14 H142 PGV sing 433 n n C15 C16 PGV sing 434 n n C15 H151 PGV sing 435 n n C15 H152 PGV sing 436 n n C16 C17 PGV sing 437 n n C16 H161 PGV sing 438 n n C16 H162 PGV sing 439 n n C17 C18 PGV sing 440 n n C17 H171 PGV sing 441 n n C17 H172 PGV sing 442 n n C18 H181 PGV sing 443 n n C18 H182 PGV sing 444 n n C18 H183 PGV sing 445 n n C19 C20 PGV sing 446 n n C20 C21 PGV sing 447 n n C20 H201 PGV sing 448 n n C20 H202 PGV sing 449 n n C21 C22 PGV sing 450 n n C21 H211 PGV sing 451 n n C21 H212 PGV sing 452 n n C22 C23 PGV sing 453 n n C22 H221 PGV sing 454 n n C22 H222 PGV sing 455 n n C23 C24 PGV sing 456 n n C23 H231 PGV sing 457 n n C23 H232 PGV sing 458 n n C24 C25 PGV sing 459 n n C24 H241 PGV sing 460 n n C24 H242 PGV sing 461 n n C25 C26 PGV sing 462 n n C25 H251 PGV sing 463 n n C25 H252 PGV sing 464 n n C26 C27 PGV sing 465 n n C26 H261 PGV sing 466 n n C26 H262 PGV sing 467 n n C27 C28 PGV sing 468 n n C27 H271 PGV sing 469 n n C27 H272 PGV sing 470 n n C28 C29 PGV sing 471 n n C28 H281 PGV sing 472 n n C28 H282 PGV sing 473 n n C29 C30 PGV sing 474 n n C29 H291 PGV sing 475 n n C29 H292 PGV sing 476 n n C30 C31 PGV sing 477 n n C30 H301 PGV sing 478 n n C30 H302 PGV sing 479 n n C31 C32 PGV sing 480 n n C31 H311 PGV sing 481 n n C31 H312 PGV sing 482 n n C32 C33 PGV sing 483 n n C32 H321 PGV sing 484 n n C32 H322 PGV sing 485 n n C33 C34 PGV sing 486 n n C33 H331 PGV sing 487 n n C33 H332 PGV sing 488 n n C34 H341 PGV sing 489 n n C34 H342 PGV sing 490 n n C34 H343 PGV sing 491 n n # _atom_sites.entry_id 2IRV _atom_sites.fract_transf_matrix[1][1] 0.020072 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003913 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01442 _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] 0.015076 _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 C 2 LDA A 1 3842 3842 LDA LDA . D 2 LDA A 1 3845 3845 LDA LDA . E 2 LDA A 1 3850 3850 LDA LDA . F 3 PO4 B 1 5156 5156 PO4 PO4 . G 2 LDA B 1 3834 3834 LDA LDA . H 2 LDA B 1 3835 3835 LDA LDA . I 2 LDA B 1 3836 3836 LDA LDA . J 2 LDA B 1 3837 3837 LDA LDA . K 2 LDA B 1 3838 3838 LDA LDA . L 2 LDA B 1 3839 3839 LDA LDA . M 2 LDA B 1 3840 3840 LDA LDA . N 2 LDA B 1 3841 3841 LDA LDA . O 2 LDA B 1 3843 3843 LDA LDA . P 2 LDA B 1 3844 3844 LDA LDA . Q 2 LDA B 1 3846 3846 LDA LDA . R 2 LDA B 1 3847 3847 LDA LDA . S 2 LDA B 1 3848 3848 LDA LDA . T 4 LMT B 1 3888 3888 LMT LMT . U 5 PGV B 1 5136 5136 PGV PGV . V 5 PGV B 1 5137 5137 PGV PGV . W 5 PGV B 1 5138 5138 PGV PGV . X 5 PGV B 1 5139 5139 PGV PGV . Y 6 HOH A 1 20 20 HOH TIP . Y 6 HOH A 2 21 21 HOH TIP . Y 6 HOH A 3 22 22 HOH TIP . Y 6 HOH A 4 23 23 HOH TIP . Y 6 HOH A 5 25 25 HOH TIP . Y 6 HOH A 6 38 38 HOH TIP . Y 6 HOH A 7 39 39 HOH TIP . Y 6 HOH A 8 40 40 HOH TIP . Y 6 HOH A 9 41 41 HOH TIP . Y 6 HOH A 10 42 42 HOH TIP . Y 6 HOH A 11 43 43 HOH TIP . Y 6 HOH A 12 44 44 HOH TIP . Y 6 HOH A 13 45 45 HOH TIP . Y 6 HOH A 14 46 46 HOH TIP . Y 6 HOH A 15 48 48 HOH TIP . Y 6 HOH A 16 49 49 HOH TIP . Y 6 HOH A 17 50 50 HOH TIP . Y 6 HOH A 18 51 51 HOH TIP . Y 6 HOH A 19 52 52 HOH TIP . Y 6 HOH A 20 53 53 HOH TIP . Y 6 HOH A 21 56 56 HOH TIP . Y 6 HOH A 22 65 65 HOH TIP . Y 6 HOH A 23 66 66 HOH TIP . Y 6 HOH A 24 67 67 HOH TIP . Y 6 HOH A 25 80 80 HOH TIP . Z 6 HOH B 1 1 1 HOH TIP . Z 6 HOH B 2 2 2 HOH TIP . Z 6 HOH B 3 3 3 HOH TIP . Z 6 HOH B 4 4 4 HOH TIP . Z 6 HOH B 5 5 5 HOH TIP . Z 6 HOH B 6 6 6 HOH TIP . Z 6 HOH B 7 7 7 HOH TIP . Z 6 HOH B 8 8 8 HOH TIP . Z 6 HOH B 9 9 9 HOH TIP . Z 6 HOH B 10 10 10 HOH TIP . Z 6 HOH B 11 11 11 HOH TIP . Z 6 HOH B 12 12 12 HOH TIP . Z 6 HOH B 13 13 13 HOH TIP . Z 6 HOH B 14 14 14 HOH TIP . Z 6 HOH B 15 15 15 HOH TIP . Z 6 HOH B 16 16 16 HOH TIP . Z 6 HOH B 17 17 17 HOH TIP . Z 6 HOH B 18 18 18 HOH TIP . Z 6 HOH B 19 19 19 HOH TIP . Z 6 HOH B 20 24 24 HOH TIP . Z 6 HOH B 21 26 26 HOH TIP . Z 6 HOH B 22 27 27 HOH TIP . Z 6 HOH B 23 28 28 HOH TIP . Z 6 HOH B 24 29 29 HOH TIP . Z 6 HOH B 25 30 30 HOH TIP . Z 6 HOH B 26 31 31 HOH TIP . Z 6 HOH B 27 32 32 HOH TIP . Z 6 HOH B 28 33 33 HOH TIP . Z 6 HOH B 29 34 34 HOH TIP . Z 6 HOH B 30 35 35 HOH TIP . Z 6 HOH B 31 36 36 HOH TIP . Z 6 HOH B 32 37 37 HOH TIP . Z 6 HOH B 33 47 47 HOH TIP . Z 6 HOH B 34 54 54 HOH TIP . Z 6 HOH B 35 55 55 HOH TIP . Z 6 HOH B 36 57 57 HOH TIP . Z 6 HOH B 37 58 58 HOH TIP . Z 6 HOH B 38 59 59 HOH TIP . Z 6 HOH B 39 60 60 HOH TIP . Z 6 HOH B 40 61 61 HOH TIP . Z 6 HOH B 41 62 62 HOH TIP . Z 6 HOH B 42 63 63 HOH TIP . Z 6 HOH B 43 64 64 HOH TIP . Z 6 HOH B 44 68 68 HOH TIP . Z 6 HOH B 45 69 69 HOH TIP . Z 6 HOH B 46 70 70 HOH TIP . Z 6 HOH B 47 71 71 HOH TIP . Z 6 HOH B 48 72 72 HOH TIP . Z 6 HOH B 49 73 73 HOH TIP . Z 6 HOH B 50 74 74 HOH TIP . Z 6 HOH B 51 75 75 HOH TIP . Z 6 HOH B 52 76 76 HOH TIP . Z 6 HOH B 53 77 77 HOH TIP . Z 6 HOH B 54 78 78 HOH TIP . Z 6 HOH B 55 79 79 HOH TIP . Z 6 HOH B 56 81 81 HOH TIP . # 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 C21 PGV . . . V 5 36.832 12.96 29.935 1 37.04 ? C21 PGV 5137 B 1 HETATM 2 C C22 PGV . . . V 5 35.308 12.887 30.112 1 37.57 ? C22 PGV 5137 B 1 HETATM 3 C C23 PGV . . . V 5 34.804 14.232 30.632 1 37.55 ? C23 PGV 5137 B 1 HETATM 4 C C24 PGV . . . V 5 33.292 14.192 30.827 1 36.56 ? C24 PGV 5137 B 1 HETATM 5 C C25 PGV . . . V 5 32.828 15.556 31.352 1 36.75 ? C25 PGV 5137 B 1 HETATM 6 C C26 PGV . . . V 5 31.308 15.528 31.563 1 36.89 ? C26 PGV 5137 B 1 HETATM 7 C C27 PGV . . . V 5 30.833 16.884 32.095 1 36.34 ? C27 PGV 5137 B 1 HETATM 8 C C28 PGV . . . V 5 29.315 16.83 32.305 1 35.78 ? C28 PGV 5137 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 8 #