data_7SX4 # _model_server_result.job_id AGO-5LmRLLee-BtL9ygg8g _model_server_result.datetime_utc '2024-10-19 09:19:16' _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 7sx4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":2104}' # _entry.id 7SX4 # _exptl.entry_id 7SX4 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 749.007 _entity.id 8 _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 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 7SX4 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7SX4 _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 pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,J,K,L _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 I _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 disulf ? disulf1 A SG CYS 207 A CYS 207 1_555 A SG CYS 239 A CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf2 A SG CYS 229 A CYS 229 1_555 A SG CYS 245 A CYS 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 1046 A CYS 1046 1_555 A SG CYS 1057 A CYS 1057 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 A SG CYS 1405 A CYS 1405 1_555 A SG CYS 1417 A CYS 1417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 B SG CYS 191 B CYS 191 1_555 B SG CYS 261 B CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 B SG CYS 226 B CYS 226 1_555 B SG CYS 313 B CYS 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 B SG CYS 304 B CYS 304 1_555 B SG CYS 341 B CYS 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 B SG CYS 324 B CYS 324 1_555 B SG CYS 377 B CYS 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf9 B SG CYS 330 B CYS 330 1_555 B SG CYS 376 B CYS 376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 B SG CYS 334 B CYS 334 1_555 B SG CYS 361 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 A C MET 286 A MET 286 1_555 A N TYS 287 A TYS 287 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C TYS 287 A TYS 287 1_555 A N ARG 288 A ARG 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 A ND2 ASN 1064 A ASN 1064 1_555 G C1 NAG . A NAG 2102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? # _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 391 n n P O12 PGV sing 392 n n P O13 PGV doub 393 n n P O14 PGV sing 394 n n C01 C02 PGV sing 395 n n C01 O03 PGV sing 396 n n C01 H011 PGV sing 397 n n C01 H012 PGV sing 398 n n C02 C03 PGV sing 399 n n C02 O01 PGV sing 400 n n C02 H02 PGV sing 401 n n C03 O11 PGV sing 402 n n C03 H031 PGV sing 403 n n C03 H032 PGV sing 404 n n C04 C05 PGV sing 405 n n C04 O12 PGV sing 406 n n C04 H041 PGV sing 407 n n C04 H042 PGV sing 408 n n C05 C06 PGV sing 409 n n C05 O05 PGV sing 410 n n C05 H05 PGV sing 411 n n C06 O06 PGV sing 412 n n C06 H061 PGV sing 413 n n C06 H062 PGV sing 414 n n O01 C1 PGV sing 415 n n O02 C1 PGV doub 416 n n O03 C19 PGV sing 417 n n O04 C19 PGV doub 418 n n O05 H1 PGV sing 419 n n O06 H06 PGV sing 420 n n O14 H14 PGV sing 421 n n C1 C2 PGV sing 422 n n C2 C3 PGV sing 423 n n C2 H21 PGV sing 424 n n C2 H22 PGV sing 425 n n C3 C4 PGV sing 426 n n C3 H31 PGV sing 427 n n C3 H32 PGV sing 428 n n C4 C5 PGV sing 429 n n C4 H41 PGV sing 430 n n C4 H42 PGV sing 431 n n C5 C6 PGV sing 432 n n C5 H51 PGV sing 433 n n C5 H52 PGV sing 434 n n C6 C7 PGV sing 435 n n C6 H61 PGV sing 436 n n C6 H62 PGV sing 437 n n C7 C8 PGV sing 438 n n C7 H71 PGV sing 439 n n C7 H72 PGV sing 440 n n C8 C9 PGV sing 441 n n C8 H81 PGV sing 442 n n C8 H82 PGV sing 443 n n C9 C10 PGV sing 444 n n C9 H91 PGV sing 445 n n C9 H92 PGV sing 446 n n C10 C11 PGV sing 447 n n C10 H101 PGV sing 448 n n C10 H102 PGV sing 449 n n C11 C12 PGV doub 450 z n C11 H11 PGV sing 451 n n C12 C13 PGV sing 452 n n C12 H12 PGV sing 453 n n C13 C14 PGV sing 454 n n C13 H131 PGV sing 455 n n C13 H132 PGV sing 456 n n C14 C15 PGV sing 457 n n C14 H141 PGV sing 458 n n C14 H142 PGV sing 459 n n C15 C16 PGV sing 460 n n C15 H151 PGV sing 461 n n C15 H152 PGV sing 462 n n C16 C17 PGV sing 463 n n C16 H161 PGV sing 464 n n C16 H162 PGV sing 465 n n C17 C18 PGV sing 466 n n C17 H171 PGV sing 467 n n C17 H172 PGV sing 468 n n C18 H181 PGV sing 469 n n C18 H182 PGV sing 470 n n C18 H183 PGV sing 471 n n C19 C20 PGV sing 472 n n C20 C21 PGV sing 473 n n C20 H201 PGV sing 474 n n C20 H202 PGV sing 475 n n C21 C22 PGV sing 476 n n C21 H211 PGV sing 477 n n C21 H212 PGV sing 478 n n C22 C23 PGV sing 479 n n C22 H221 PGV sing 480 n n C22 H222 PGV sing 481 n n C23 C24 PGV sing 482 n n C23 H231 PGV sing 483 n n C23 H232 PGV sing 484 n n C24 C25 PGV sing 485 n n C24 H241 PGV sing 486 n n C24 H242 PGV sing 487 n n C25 C26 PGV sing 488 n n C25 H251 PGV sing 489 n n C25 H252 PGV sing 490 n n C26 C27 PGV sing 491 n n C26 H261 PGV sing 492 n n C26 H262 PGV sing 493 n n C27 C28 PGV sing 494 n n C27 H271 PGV sing 495 n n C27 H272 PGV sing 496 n n C28 C29 PGV sing 497 n n C28 H281 PGV sing 498 n n C28 H282 PGV sing 499 n n C29 C30 PGV sing 500 n n C29 H291 PGV sing 501 n n C29 H292 PGV sing 502 n n C30 C31 PGV sing 503 n n C30 H301 PGV sing 504 n n C30 H302 PGV sing 505 n n C31 C32 PGV sing 506 n n C31 H311 PGV sing 507 n n C31 H312 PGV sing 508 n n C32 C33 PGV sing 509 n n C32 H321 PGV sing 510 n n C32 H322 PGV sing 511 n n C33 C34 PGV sing 512 n n C33 H331 PGV sing 513 n n C33 H332 PGV sing 514 n n C34 H341 PGV sing 515 n n C34 H342 PGV sing 516 n n C34 H343 PGV sing 517 n n # _atom_sites.entry_id 7SX4 _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 F 6 NAG A 1 2101 1801 NAG NAG . G 6 NAG A 1 2102 1802 NAG NAG . H 7 PEV A 1 2103 1803 PEV PEV . I 8 PGV A 1 2104 1809 PGV PGV . J 9 Y01 A 1 2105 1901 Y01 Y01 . K 9 Y01 A 1 2106 2001 Y01 Y01 . L 9 Y01 A 1 2107 2101 Y01 Y01 . # 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 P P PGV . . . I 8 181.092 244.523 258.707 1 110.96 ? P PGV 2104 A 1 HETATM 2 C C01 PGV . . . I 8 184.603 243.951 260.883 1 110.96 ? C01 PGV 2104 A 1 HETATM 3 C C02 PGV . . . I 8 183.388 243.764 261.788 1 110.96 ? C02 PGV 2104 A 1 HETATM 4 C C03 PGV . . . I 8 182.141 244.312 261.101 1 110.96 ? C03 PGV 2104 A 1 HETATM 5 O O01 PGV . . . I 8 183.599 244.455 262.984 1 110.96 ? O01 PGV 2104 A 1 HETATM 6 O O02 PGV . . . I 8 182.109 243.584 264.416 1 110.96 ? O02 PGV 2104 A 1 HETATM 7 O O03 PGV . . . I 8 185.77 243.788 261.636 1 110.96 ? O03 PGV 2104 A 1 HETATM 8 O O04 PGV . . . I 8 186.468 241.82 260.839 1 110.96 ? O04 PGV 2104 A 1 HETATM 9 O O11 PGV . . . I 8 182.382 244.464 259.732 1 110.96 ? O11 PGV 2104 A 1 HETATM 10 O O12 PGV . . . I 8 181.601 245.002 257.216 1 110.96 ? O12 PGV 2104 A 1 HETATM 11 O O13 PGV . . . I 8 180.078 245.51 259.233 1 110.96 ? O13 PGV 2104 A 1 HETATM 12 O O14 PGV . . . I 8 180.46 243.156 258.611 1 110.96 ? O14 PGV 2104 A 1 HETATM 13 C C1 PGV . . . I 8 183.249 243.735 264.134 1 110.96 ? C1 PGV 2104 A 1 HETATM 14 C C2 PGV . . . I 8 184.345 243.146 265.024 1 110.96 ? C2 PGV 2104 A 1 HETATM 15 C C3 PGV . . . I 8 185.355 244.247 265.361 1 110.96 ? C3 PGV 2104 A 1 HETATM 16 C C4 PGV . . . I 8 186.644 243.632 265.911 1 110.96 ? C4 PGV 2104 A 1 HETATM 17 C C5 PGV . . . I 8 187.501 243.104 264.752 1 110.96 ? C5 PGV 2104 A 1 HETATM 18 C C6 PGV . . . I 8 188.675 242.292 265.313 1 110.96 ? C6 PGV 2104 A 1 HETATM 19 C C7 PGV . . . I 8 189.776 242.171 264.252 1 110.96 ? C7 PGV 2104 A 1 HETATM 20 C C8 PGV . . . I 8 191.133 242.587 264.836 1 110.96 ? C8 PGV 2104 A 1 HETATM 21 C C9 PGV . . . I 8 192.1 242.861 263.678 1 110.96 ? C9 PGV 2104 A 1 HETATM 22 C C10 PGV . . . I 8 192.181 244.362 263.395 1 110.96 ? C10 PGV 2104 A 1 HETATM 23 C C11 PGV . . . I 8 193.377 244.636 262.48 1 110.96 ? C11 PGV 2104 A 1 HETATM 24 C C12 PGV . . . I 8 193.867 245.86 262.38 1 110.96 ? C12 PGV 2104 A 1 HETATM 25 C C13 PGV . . . I 8 195.066 246.168 261.47 1 110.96 ? C13 PGV 2104 A 1 HETATM 26 C C14 PGV . . . I 8 196.145 245.082 261.59 1 110.96 ? C14 PGV 2104 A 1 HETATM 27 C C15 PGV . . . I 8 197.348 245.457 260.716 1 110.96 ? C15 PGV 2104 A 1 HETATM 28 C C19 PGV . . . I 8 186.723 242.96 261.03 1 110.96 ? C19 PGV 2104 A 1 HETATM 29 C C20 PGV . . . I 8 188.083 243.536 260.626 1 110.96 ? C20 PGV 2104 A 1 HETATM 30 C C21 PGV . . . I 8 188.85 242.538 259.753 1 110.96 ? C21 PGV 2104 A 1 HETATM 31 C C22 PGV . . . I 8 190.357 242.663 259.978 1 110.96 ? C22 PGV 2104 A 1 HETATM 32 C C23 PGV . . . I 8 191.004 243.319 258.758 1 110.96 ? C23 PGV 2104 A 1 HETATM 33 C C24 PGV . . . I 8 192.466 243.632 259.072 1 110.96 ? C24 PGV 2104 A 1 HETATM 34 C C25 PGV . . . I 8 193.367 242.6 258.39 1 110.96 ? C25 PGV 2104 A 1 HETATM 35 C C26 PGV . . . I 8 194.816 242.834 258.811 1 110.96 ? C26 PGV 2104 A 1 HETATM 36 C C27 PGV . . . I 8 195.742 241.971 257.956 1 110.96 ? C27 PGV 2104 A 1 HETATM 37 C C28 PGV . . . I 8 196.382 242.829 256.867 1 110.96 ? C28 PGV 2104 A 1 HETATM 38 C C29 PGV . . . I 8 197.896 242.64 256.9 1 110.96 ? C29 PGV 2104 A 1 HETATM 39 C C30 PGV . . . I 8 198.487 243.045 255.554 1 110.96 ? C30 PGV 2104 A 1 HETATM 40 C C31 PGV . . . I 8 200.002 243.18 255.685 1 110.96 ? C31 PGV 2104 A 1 # _model_server_stats.io_time_ms 110 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 47 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 40 #