data_8JNI # _model_server_result.job_id 0a8nelbtLY7M3S63CklZeg _model_server_result.datetime_utc '2024-11-04 18:41:03' _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 8jni # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1301}' # _entry.id 8JNI # _exptl.entry_id 8JNI _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 1047.088 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 E N N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 855 _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 855 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 855 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 855 _struct_conn.ptnr2_symmetry 1_555 _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 1.989 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C47 H85 O19 P3' _chem_comp.formula_weight 1047.088 _chem_comp.id PT5 _chem_comp.mon_nstd_flag . _chem_comp.name '[(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Phosphatidylinositol 4,5-bisphosphate;PtdIns(4,5)P2' # 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 C23 C24 PT5 sing 275 n n C23 C22 PT5 sing 276 n n C22 C21 PT5 doub 277 e n C21 C20 PT5 sing 278 n n C20 C19 PT5 sing 279 n n C19 C18 PT5 doub 280 z n C16 C17 PT5 sing 281 n n C16 C15 PT5 doub 282 z n C18 C17 PT5 sing 283 n n C15 C14 PT5 sing 284 n n C14 C13 PT5 sing 285 n n C13 C12 PT5 sing 286 n n O17 C10 PT5 doub 287 n n O52 P5 PT5 doub 288 n n O6 C6 PT5 sing 289 n n C12 C10 PT5 sing 290 n n O53 P5 PT5 sing 291 n n C10 O16 PT5 sing 292 n n P5 O5 PT5 sing 293 n n P5 O51 PT5 sing 294 n n O5 C5 PT5 sing 295 n n C5 C6 PT5 sing 296 n n C5 C4 PT5 sing 297 n n C6 C1 PT5 sing 298 n n C1 C2 PT5 sing 299 n n C1 O1 PT5 sing 300 n n O16 C8 PT5 sing 301 n n C7 O13 PT5 sing 302 n n C7 C8 PT5 sing 303 n n C2 O2 PT5 sing 304 n n C2 C3 PT5 sing 305 n n O13 P1 PT5 sing 306 n n C8 C9 PT5 sing 307 n n O4 C4 PT5 sing 308 n n O4 P4 PT5 sing 309 n n C4 C3 PT5 sing 310 n n C3 O3 PT5 sing 311 n n O1 P1 PT5 sing 312 n n O42 P4 PT5 doub 313 n n P1 O11 PT5 doub 314 n n P1 O12 PT5 sing 315 n n P4 O41 PT5 sing 316 n n P4 O43 PT5 sing 317 n n C9 O18 PT5 sing 318 n n C31 C11 PT5 sing 319 n n C31 C32 PT5 sing 320 n n O18 C11 PT5 sing 321 n n C11 O19 PT5 doub 322 n n C32 C33 PT5 sing 323 n n C33 C34 PT5 sing 324 n n C34 C35 PT5 sing 325 n n C35 C36 PT5 sing 326 n n C36 C37 PT5 sing 327 n n C37 C38 PT5 sing 328 n n C40 C39 PT5 sing 329 n n C39 C38 PT5 sing 330 n n O12 H1 PT5 sing 331 n n O6 H2 PT5 sing 332 n n C1 H3 PT5 sing 333 n n C6 H4 PT5 sing 334 n n C2 H5 PT5 sing 335 n n O2 H6 PT5 sing 336 n n C3 H7 PT5 sing 337 n n O3 H8 PT5 sing 338 n n C4 H9 PT5 sing 339 n n O41 H10 PT5 sing 340 n n O43 H11 PT5 sing 341 n n C5 H12 PT5 sing 342 n n O51 H13 PT5 sing 343 n n O53 H14 PT5 sing 344 n n C7 H15 PT5 sing 345 n n C7 H16 PT5 sing 346 n n C8 H17 PT5 sing 347 n n C9 H18 PT5 sing 348 n n C9 H19 PT5 sing 349 n n C12 H20 PT5 sing 350 n n C12 H21 PT5 sing 351 n n C13 H22 PT5 sing 352 n n C13 H23 PT5 sing 353 n n C14 H24 PT5 sing 354 n n C14 H25 PT5 sing 355 n n C15 H26 PT5 sing 356 n n C16 H28 PT5 sing 357 n n C17 H30 PT5 sing 358 n n C17 H31 PT5 sing 359 n n C18 H32 PT5 sing 360 n n C19 H33 PT5 sing 361 n n C20 H34 PT5 sing 362 n n C20 H35 PT5 sing 363 n n C21 H36 PT5 sing 364 n n C22 H38 PT5 sing 365 n n C23 H40 PT5 sing 366 n n C23 H41 PT5 sing 367 n n C24 H42 PT5 sing 368 n n C31 H45 PT5 sing 369 n n C31 H46 PT5 sing 370 n n C32 H47 PT5 sing 371 n n C32 H48 PT5 sing 372 n n C33 H49 PT5 sing 373 n n C33 H50 PT5 sing 374 n n C34 H51 PT5 sing 375 n n C34 H52 PT5 sing 376 n n C35 H53 PT5 sing 377 n n C35 H54 PT5 sing 378 n n C36 H55 PT5 sing 379 n n C36 H56 PT5 sing 380 n n C37 H57 PT5 sing 381 n n C37 H58 PT5 sing 382 n n C38 H59 PT5 sing 383 n n C38 H60 PT5 sing 384 n n C39 H61 PT5 sing 385 n n C39 H62 PT5 sing 386 n n C40 H63 PT5 sing 387 n n C40 H64 PT5 sing 388 n n C24 C25 PT5 doub 389 n n C25 C26 PT5 sing 390 n n C26 C27 PT5 sing 391 n n C27 C28 PT5 sing 392 n n C28 C29 PT5 sing 393 n n C29 C30 PT5 sing 394 n n C40 C41 PT5 sing 395 n n C41 C42 PT5 sing 396 n n C42 C43 PT5 sing 397 n n C43 C44 PT5 sing 398 n n C44 C45 PT5 sing 399 n n C45 C46 PT5 sing 400 n n C46 C47 PT5 sing 401 n n C25 H27 PT5 sing 402 n n C26 H29 PT5 sing 403 n n C26 H37 PT5 sing 404 n n C27 H39 PT5 sing 405 n n C27 H43 PT5 sing 406 n n C28 H44 PT5 sing 407 n n C28 H65 PT5 sing 408 n n C29 H66 PT5 sing 409 n n C29 H67 PT5 sing 410 n n C30 H68 PT5 sing 411 n n C30 H69 PT5 sing 412 n n C30 H70 PT5 sing 413 n n C41 H71 PT5 sing 414 n n C41 H72 PT5 sing 415 n n C42 H73 PT5 sing 416 n n C42 H74 PT5 sing 417 n n C43 H75 PT5 sing 418 n n C43 H76 PT5 sing 419 n n C44 H77 PT5 sing 420 n n C44 H78 PT5 sing 421 n n C45 H79 PT5 sing 422 n n C45 H80 PT5 sing 423 n n C46 H81 PT5 sing 424 n n C46 H82 PT5 sing 425 n n C47 H83 PT5 sing 426 n n C47 H84 PT5 sing 427 n n C47 H85 PT5 sing 428 n n # _atom_sites.entry_id 8JNI _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 C 2 CL B 1 1401 1401 CL CL . D 3 PT5 B 1 1402 1301 PT5 PT5 . E 3 PT5 A 1 1301 1301 PT5 PT5 . F 2 CL A 1 1302 1401 CL CL . # 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 O O12 PT5 . . . E 3 188.09 162.832 147.085 1 62.28 ? O12 PT5 1301 A 1 HETATM 2 P P1 PT5 . . . E 3 186.869 163.508 147.565 1 62.28 ? P1 PT5 1301 A 1 HETATM 3 O O13 PT5 . . . E 3 187.095 164.381 148.876 1 62.28 ? O13 PT5 1301 A 1 HETATM 4 O O11 PT5 . . . E 3 186.148 164.433 146.585 1 62.28 ? O11 PT5 1301 A 1 HETATM 5 O O6 PT5 . . . E 3 185.885 160.177 146.512 1 62.28 ? O6 PT5 1301 A 1 HETATM 6 O O1 PT5 . . . E 3 185.78 162.52 148.109 1 62.28 ? O1 PT5 1301 A 1 HETATM 7 C C1 PT5 . . . E 3 184.583 161.861 147.649 1 62.28 ? C1 PT5 1301 A 1 HETATM 8 C C6 PT5 . . . E 3 184.873 160.377 147.492 1 62.28 ? C6 PT5 1301 A 1 HETATM 9 C C2 PT5 . . . E 3 183.514 162.097 148.7 1 62.28 ? C2 PT5 1301 A 1 HETATM 10 O O2 PT5 . . . E 3 183.98 161.659 149.968 1 62.28 ? O2 PT5 1301 A 1 HETATM 11 C C3 PT5 . . . E 3 182.217 161.394 148.331 1 62.28 ? C3 PT5 1301 A 1 HETATM 12 O O3 PT5 . . . E 3 181.283 161.542 149.395 1 62.28 ? O3 PT5 1301 A 1 HETATM 13 C C4 PT5 . . . E 3 182.449 159.917 148.048 1 62.28 ? C4 PT5 1301 A 1 HETATM 14 O O4 PT5 . . . E 3 181.244 159.385 147.459 1 62.28 ? O4 PT5 1301 A 1 HETATM 15 P P4 PT5 . . . E 3 180.003 158.647 148.174 1 62.28 ? P4 PT5 1301 A 1 HETATM 16 O O41 PT5 . . . E 3 179.94 158.979 149.618 1 62.28 ? O41 PT5 1301 A 1 HETATM 17 O O42 PT5 . . . E 3 178.757 159.105 147.409 1 62.28 ? O42 PT5 1301 A 1 HETATM 18 O O43 PT5 . . . E 3 180.2 157.151 147.914 1 62.28 ? O43 PT5 1301 A 1 HETATM 19 C C5 PT5 . . . E 3 183.587 159.685 147.068 1 62.28 ? C5 PT5 1301 A 1 HETATM 20 O O5 PT5 . . . E 3 183.196 160.174 145.768 1 62.28 ? O5 PT5 1301 A 1 HETATM 21 P P5 PT5 . . . E 3 183.317 159.297 144.413 1 62.28 ? P5 PT5 1301 A 1 HETATM 22 O O52 PT5 . . . E 3 182.034 159.302 143.664 1 62.28 ? O52 PT5 1301 A 1 HETATM 23 O O51 PT5 . . . E 3 184.475 159.917 143.626 1 62.28 ? O51 PT5 1301 A 1 HETATM 24 O O53 PT5 . . . E 3 183.742 157.895 144.86 1 62.28 ? O53 PT5 1301 A 1 HETATM 25 C C7 PT5 . . . E 3 187.998 165.487 149.071 1 62.28 ? C7 PT5 1301 A 1 HETATM 26 C C8 PT5 . . . E 3 187.746 165.975 150.469 1 62.28 ? C8 PT5 1301 A 1 HETATM 27 C C9 PT5 . . . E 3 188.99 166.52 151.117 1 62.28 ? C9 PT5 1301 A 1 HETATM 28 O O16 PT5 . . . E 3 186.736 167.025 150.341 1 62.28 ? O16 PT5 1301 A 1 HETATM 29 C C10 PT5 . . . E 3 186.271 167.595 151.46 1 62.28 ? C10 PT5 1301 A 1 HETATM 30 O O17 PT5 . . . E 3 186.495 168.734 151.775 1 62.28 ? O17 PT5 1301 A 1 HETATM 31 O O18 PT5 . . . E 3 188.836 166.411 152.551 1 62.28 ? O18 PT5 1301 A 1 HETATM 32 C C11 PT5 . . . E 3 189.831 166.875 153.307 1 62.28 ? C11 PT5 1301 A 1 HETATM 33 O O19 PT5 . . . E 3 190.664 167.648 152.915 1 62.28 ? O19 PT5 1301 A 1 HETATM 34 C C12 PT5 . . . E 3 185.418 166.633 152.232 1 62.28 ? C12 PT5 1301 A 1 HETATM 35 C C13 PT5 . . . E 3 184.863 167.215 153.52 1 62.28 ? C13 PT5 1301 A 1 HETATM 36 C C14 PT5 . . . E 3 185.876 167.317 154.647 1 62.28 ? C14 PT5 1301 A 1 HETATM 37 C C15 PT5 . . . E 3 185.298 167.9 155.926 1 62.28 ? C15 PT5 1301 A 1 HETATM 38 C C16 PT5 . . . E 3 186.283 167.947 157.079 1 62.28 ? C16 PT5 1301 A 1 HETATM 39 C C17 PT5 . . . E 3 186.829 166.585 157.475 1 62.28 ? C17 PT5 1301 A 1 HETATM 40 C C31 PT5 . . . E 3 189.766 166.311 154.695 1 62.28 ? C31 PT5 1301 A 1 HETATM 41 C C32 PT5 . . . E 3 190.881 166.82 155.599 1 62.28 ? C32 PT5 1301 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 41 #