data_8QBD # _model_server_result.job_id J7b9QCwryTZT6hdJFM0V5Q _model_server_result.datetime_utc '2024-10-10 10:23:13' _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 8qbd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":402}' # _entry.id 8QBD # _exptl.entry_id 8QBD _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 792.075 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine _entity.pdbx_number_of_molecules 14 _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 8QBD _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8QBD _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 14-meric _pdbx_struct_assembly.oligomeric_count 14 _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,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 P N N ? 3 R N N ? 3 T N N ? 3 V N N ? 3 X N N ? 3 Z N N ? 3 BA N N ? 3 DA N N ? 3 FA N N ? 3 HA N N ? 3 JA N N ? 3 LA N N ? 3 NA N N ? 3 PA N N # _chem_comp.formula 'C42 H82 N O10 P' _chem_comp.formula_weight 792.075 _chem_comp.id P5S _chem_comp.mon_nstd_flag . _chem_comp.name O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'phosphatidyl serine' # 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 CA C P5S sing 261 n n O C P5S doub 262 n n C OXT P5S sing 263 n n CA N P5S sing 264 n n N HN P5S sing 265 n n N HNA P5S sing 266 n n O19 C1 P5S sing 267 n n C1 C2 P5S sing 268 n n C1 H1 P5S sing 269 n n C1 H1A P5S sing 270 n n C2 O37 P5S sing 271 n n C2 C3 P5S sing 272 n n C2 H2 P5S sing 273 n n O16 C3 P5S sing 274 n n C3 H3 P5S sing 275 n n C3 H3A P5S sing 276 n n CB CA P5S sing 277 n n CA HA P5S sing 278 n n CB OG P5S sing 279 n n CB HB P5S sing 280 n n CB HBA P5S sing 281 n n P12 OG P5S sing 282 n n O16 P12 P5S sing 283 n n O13 P12 P5S doub 284 n n P12 O15 P5S sing 285 n n O15 HO15 P5S sing 286 n n C20 C17 P5S sing 287 n n O19 C17 P5S sing 288 n n C17 O18 P5S doub 289 n n C21 C20 P5S sing 290 n n C20 H20 P5S sing 291 n n C20 H20A P5S sing 292 n n C21 C22 P5S sing 293 n n C21 H21 P5S sing 294 n n C21 H21A P5S sing 295 n n C23 C22 P5S sing 296 n n C22 H22 P5S sing 297 n n C22 H22A P5S sing 298 n n C24 C23 P5S sing 299 n n C23 H23 P5S sing 300 n n C23 H23A P5S sing 301 n n C25 C24 P5S sing 302 n n C24 H24 P5S sing 303 n n C24 H24A P5S sing 304 n n C26 C25 P5S sing 305 n n C25 H25 P5S sing 306 n n C25 H25A P5S sing 307 n n C26 C27 P5S sing 308 n n C26 H26 P5S sing 309 n n C26 H26A P5S sing 310 n n C27 C28 P5S sing 311 n n C27 H27 P5S sing 312 n n C27 H27A P5S sing 313 n n C29 C28 P5S sing 314 n n C28 H28 P5S sing 315 n n C28 H28A P5S sing 316 n n C30 C29 P5S sing 317 n n C29 H29 P5S sing 318 n n C29 H29A P5S sing 319 n n C31 C30 P5S sing 320 n n C30 H30 P5S sing 321 n n C30 H30A P5S sing 322 n n C31 C32 P5S sing 323 n n C31 H31 P5S sing 324 n n C31 H31A P5S sing 325 n n C33 C32 P5S sing 326 n n C32 H32 P5S sing 327 n n C32 H32A P5S sing 328 n n C33 C34 P5S sing 329 n n C33 H33 P5S sing 330 n n C33 H33A P5S sing 331 n n C35 C34 P5S sing 332 n n C34 H34 P5S sing 333 n n C34 H34A P5S sing 334 n n C36 C35 P5S sing 335 n n C35 H35 P5S sing 336 n n C35 H35A P5S sing 337 n n C36 H36 P5S sing 338 n n C36 H36A P5S sing 339 n n C36 H36B P5S sing 340 n n C38 O37 P5S sing 341 n n O47 C38 P5S doub 342 n n C38 C39 P5S sing 343 n n C40 C39 P5S sing 344 n n C39 H39 P5S sing 345 n n C39 H39A P5S sing 346 n n C41 C40 P5S sing 347 n n C40 H40 P5S sing 348 n n C40 H40A P5S sing 349 n n C42 C41 P5S sing 350 n n C41 H41 P5S sing 351 n n C41 H41A P5S sing 352 n n C43 C42 P5S sing 353 n n C42 H42 P5S sing 354 n n C42 H42A P5S sing 355 n n C43 C44 P5S sing 356 n n C43 H43 P5S sing 357 n n C43 H43A P5S sing 358 n n C44 C45 P5S sing 359 n n C44 H44 P5S sing 360 n n C44 H44A P5S sing 361 n n C45 C46 P5S sing 362 n n C45 H45 P5S sing 363 n n C45 H45A P5S sing 364 n n C46 C48 P5S sing 365 n n C46 H46 P5S sing 366 n n C46 H46A P5S sing 367 n n C48 C49 P5S sing 368 n n C48 H48 P5S sing 369 n n C48 H48A P5S sing 370 n n C49 C50 P5S sing 371 n n C49 H49 P5S sing 372 n n C49 H49A P5S sing 373 n n C50 C51 P5S sing 374 n n C50 H50 P5S sing 375 n n C50 H50A P5S sing 376 n n C51 C52 P5S sing 377 n n C51 H51 P5S sing 378 n n C51 H51A P5S sing 379 n n C53 C52 P5S sing 380 n n C52 H52 P5S sing 381 n n C52 H52A P5S sing 382 n n C53 C54 P5S sing 383 n n C53 H53 P5S sing 384 n n C53 H53A P5S sing 385 n n C55 C54 P5S sing 386 n n C54 H54 P5S sing 387 n n C54 H54A P5S sing 388 n n C55 C56 P5S sing 389 n n C55 H55 P5S sing 390 n n C55 H55A P5S sing 391 n n C56 H56 P5S sing 392 n n C56 H56A P5S sing 393 n n C56 H56B P5S sing 394 n n OXT HXT P5S sing 395 n n # _atom_sites.entry_id 8QBD _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 O 2 I3P A 1 401 401 I3P I3P . P 3 P5S A 1 402 501 P5S P5S . Q 2 I3P B 1 401 401 I3P I3P . R 3 P5S B 1 402 501 P5S P5S . S 2 I3P C 1 401 401 I3P I3P . T 3 P5S C 1 402 501 P5S P5S . U 2 I3P I 1 401 401 I3P I3P . V 3 P5S I 1 402 501 P5S P5S . W 2 I3P D 1 401 401 I3P I3P . X 3 P5S D 1 402 501 P5S P5S . Y 2 I3P J 1 401 401 I3P I3P . Z 3 P5S J 1 402 501 P5S P5S . AA 2 I3P E 1 401 401 I3P I3P . BA 3 P5S E 1 402 501 P5S P5S . CA 2 I3P K 1 401 401 I3P I3P . DA 3 P5S K 1 402 501 P5S P5S . EA 2 I3P F 1 401 401 I3P I3P . FA 3 P5S F 1 402 501 P5S P5S . GA 2 I3P L 1 401 401 I3P I3P . HA 3 P5S L 1 402 501 P5S P5S . IA 2 I3P G 1 401 401 I3P I3P . JA 3 P5S G 1 402 501 P5S P5S . KA 2 I3P M 1 401 401 I3P I3P . LA 3 P5S M 1 402 501 P5S P5S . MA 2 I3P H 1 401 401 I3P I3P . NA 3 P5S H 1 402 501 P5S P5S . OA 2 I3P N 1 401 401 I3P I3P . PA 3 P5S N 1 402 501 P5S P5S . # 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 C P5S . . . V 3 228.049 156.92 303.411 1 117.01 ? C P5S 402 I 1 HETATM 2 N N P5S . . . V 3 226.634 155.12 302.59 1 117.01 ? N P5S 402 I 1 HETATM 3 O O P5S . . . V 3 227.39 157.681 302.654 1 117.01 ? O P5S 402 I 1 HETATM 4 C C1 P5S . . . V 3 234.654 156.166 299.621 1 117.01 ? C1 P5S 402 I 1 HETATM 5 C C2 P5S . . . V 3 234.698 155.452 300.971 1 117.01 ? C2 P5S 402 I 1 HETATM 6 C C3 P5S . . . V 3 233.395 154.687 301.188 1 117.01 ? C3 P5S 402 I 1 HETATM 7 C CA P5S . . . V 3 227.842 155.409 303.342 1 117.01 ? CA P5S 402 I 1 HETATM 8 C CB P5S . . . V 3 229.038 154.759 302.65 1 117.01 ? CB P5S 402 I 1 HETATM 9 O OG P5S . . . V 3 229.731 155.746 301.941 1 117.01 ? OG P5S 402 I 1 HETATM 10 P P12 P5S . . . V 3 230.864 155.268 300.845 1 117.01 ? P12 P5S 402 I 1 HETATM 11 O O13 P5S . . . V 3 230.644 155.999 299.542 1 117.01 ? O13 P5S 402 I 1 HETATM 12 O O15 P5S . . . V 3 230.742 153.781 300.614 1 117.01 ? O15 P5S 402 I 1 HETATM 13 O O16 P5S . . . V 3 232.37 155.611 301.42 1 117.01 ? O16 P5S 402 I 1 HETATM 14 C C17 P5S . . . V 3 233.856 155.913 297.429 1 117.01 ? C17 P5S 402 I 1 HETATM 15 O O18 P5S . . . V 3 234.403 156.934 297.174 1 117.01 ? O18 P5S 402 I 1 HETATM 16 O O19 P5S . . . V 3 233.959 155.362 298.711 1 117.01 ? O19 P5S 402 I 1 HETATM 17 C C20 P5S . . . V 3 233.037 155.199 296.356 1 117.01 ? C20 P5S 402 I 1 HETATM 18 O O37 P5S . . . V 3 234.863 156.397 301.989 1 117.01 ? O37 P5S 402 I 1 HETATM 19 C C38 P5S . . . V 3 236.174 156.87 302.116 1 117.01 ? C38 P5S 402 I 1 HETATM 20 C C39 P5S . . . V 3 237.276 155.95 302.637 1 117.01 ? C39 P5S 402 I 1 HETATM 21 C C40 P5S . . . V 3 237.328 155.917 304.164 1 117.01 ? C40 P5S 402 I 1 HETATM 22 C C41 P5S . . . V 3 237.928 154.624 304.716 1 117.01 ? C41 P5S 402 I 1 HETATM 23 C C42 P5S . . . V 3 237.566 153.403 303.874 1 117.01 ? C42 P5S 402 I 1 HETATM 24 C C43 P5S . . . V 3 238.799 152.682 303.335 1 117.01 ? C43 P5S 402 I 1 HETATM 25 C C44 P5S . . . V 3 238.449 151.778 302.157 1 117.01 ? C44 P5S 402 I 1 HETATM 26 C C45 P5S . . . V 3 238.991 152.326 300.84 1 117.01 ? C45 P5S 402 I 1 HETATM 27 C C46 P5S . . . V 3 238.489 151.537 299.633 1 117.01 ? C46 P5S 402 I 1 HETATM 28 O O47 P5S . . . V 3 236.429 157.991 301.826 1 117.01 ? O47 P5S 402 I 1 HETATM 29 C C48 P5S . . . V 3 238.103 152.454 298.475 1 117.01 ? C48 P5S 402 I 1 HETATM 30 O OXT P5S . . . V 3 228.877 157.406 304.225 1 117.01 ? OXT P5S 402 I 1 # _model_server_stats.io_time_ms 36 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 30 #