data_8J02 # _model_server_result.job_id B_IJ_Tvpj4uCET6b7hg-Xw _model_server_result.datetime_utc '2024-11-23 01:31:18' _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 8j02 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":802}' # _entry.id 8J02 # _exptl.entry_id 8J02 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 746.566 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate' _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 90 _cell.angle_gamma 90 _cell.entry_id 8J02 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8J02 _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 octameric _pdbx_struct_assembly.oligomeric_count 8 _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,M,N,O,P _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 ? 4 J N N ? 4 K N N ? 4 M N N ? 4 O N N # _chem_comp.formula 'C25 H49 O19 P3' _chem_comp.formula_weight 746.566 _chem_comp.id PIO _chem_comp.mon_nstd_flag . _chem_comp.name '[(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'dioctanoyl l-alpha-phosphatidyl-d-myo-inositol 4,5-diphosphate' # 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 C1 O1 PIO sing 312 n n C1 C2 PIO sing 313 n n C1 C6 PIO sing 314 n n C1 H1 PIO sing 315 n n O1 P1 PIO sing 316 n n P1 O11 PIO sing 317 n n O11 H11 PIO sing 318 n n P1 O12 PIO doub 319 n n P1 O13 PIO sing 320 n n C2 O2 PIO sing 321 n n C2 C3 PIO sing 322 n n C2 H2 PIO sing 323 n n O2 HO2 PIO sing 324 n n C3 O3 PIO sing 325 n n C3 C4 PIO sing 326 n n C3 H3 PIO sing 327 n n O3 HO3 PIO sing 328 n n C4 O4 PIO sing 329 n n C4 C5 PIO sing 330 n n C4 H4 PIO sing 331 n n O4 P4 PIO sing 332 n n P4 O41 PIO sing 333 n n O41 H41 PIO sing 334 n n P4 O42 PIO doub 335 n n P4 O43 PIO sing 336 n n O43 H43 PIO sing 337 n n C5 O5 PIO sing 338 n n C5 C6 PIO sing 339 n n C5 H5 PIO sing 340 n n O5 P5 PIO sing 341 n n P5 O51 PIO sing 342 n n O51 H51 PIO sing 343 n n P5 O52 PIO sing 344 n n O52 H52 PIO sing 345 n n P5 O53 PIO doub 346 n n C6 O6 PIO sing 347 n n C6 H6 PIO sing 348 n n O6 HO6 PIO sing 349 n n O13 C1C PIO sing 350 n n C1A O1A PIO doub 351 n n C1A C2A PIO sing 352 n n C1A O2C PIO sing 353 n n C1B O1B PIO doub 354 n n C1B C2B PIO sing 355 n n C1B O3C PIO sing 356 n n C1C C2C PIO sing 357 n n C1C H1C PIO sing 358 n n C1C H1CA PIO sing 359 n n C2A C3A PIO sing 360 n n C2A H2A PIO sing 361 n n C2A H2AA PIO sing 362 n n C2B C3B PIO sing 363 n n C2B H2B PIO sing 364 n n C2B H2BA PIO sing 365 n n C2C O2C PIO sing 366 n n C2C C3C PIO sing 367 n n C2C H2C PIO sing 368 n n C3A C4A PIO sing 369 n n C3A H3A PIO sing 370 n n C3A H3AA PIO sing 371 n n C3B C4B PIO sing 372 n n C3B H3B PIO sing 373 n n C3B H3BA PIO sing 374 n n C3C O3C PIO sing 375 n n C3C H3C PIO sing 376 n n C3C H3CA PIO sing 377 n n C4A C5A PIO sing 378 n n C4A H4A PIO sing 379 n n C4A H4AA PIO sing 380 n n C4B C5B PIO sing 381 n n C4B H4B PIO sing 382 n n C4B H4BA PIO sing 383 n n C5A C6A PIO sing 384 n n C5A H5A PIO sing 385 n n C5A H5AA PIO sing 386 n n C5B C6B PIO sing 387 n n C5B H5B PIO sing 388 n n C5B H5BA PIO sing 389 n n C6A C7A PIO sing 390 n n C6A H6A PIO sing 391 n n C6A H6AA PIO sing 392 n n C6B C7B PIO sing 393 n n C6B H6B PIO sing 394 n n C6B H6BA PIO sing 395 n n C7A C8A PIO sing 396 n n C7A H7A PIO sing 397 n n C7A H7AA PIO sing 398 n n C7B C8B PIO sing 399 n n C7B H7B PIO sing 400 n n C7B H7BA PIO sing 401 n n C8A H8A PIO sing 402 n n C8A H8AA PIO sing 403 n n C8A H8AB PIO sing 404 n n C8B H8B PIO sing 405 n n C8B H8BA PIO sing 406 n n C8B H8BB PIO sing 407 n n # _atom_sites.entry_id 8J02 _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 I 3 P0T A 1 801 1 P0T LIG . J 4 PIO A 1 802 901 PIO PIP . K 4 PIO B 1 801 902 PIO PIP . L 3 P0T B 1 802 4 P0T LIG . M 4 PIO D 1 801 903 PIO PIP . N 3 P0T D 1 802 3 P0T LIG . O 4 PIO G 1 801 904 PIO PIP . P 3 P0T G 1 802 2 P0T LIG . # 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 PIO . . . J 4 98.452 91.772 114.619 1 110.87 0 C1 PIO 802 A 1 HETATM 2 O O1 PIO . . . J 4 99.123 92.979 114.392 1 110.87 0 O1 PIO 802 A 1 HETATM 3 P P1 PIO . . . J 4 100.488 92.942 113.471 1 110.87 0 P1 PIO 802 A 1 HETATM 4 C C2 PIO . . . J 4 96.949 92.011 114.482 1 110.87 0 C2 PIO 802 A 1 HETATM 5 O O2 PIO . . . J 4 96.702 92.613 113.242 1 110.87 0 O2 PIO 802 A 1 HETATM 6 C C3 PIO . . . J 4 96.451 92.939 115.586 1 110.87 0 C3 PIO 802 A 1 HETATM 7 O O3 PIO . . . J 4 97.03 94.201 115.41 1 110.87 0 O3 PIO 802 A 1 HETATM 8 C C4 PIO . . . J 4 96.817 92.413 116.976 1 110.87 0 C4 PIO 802 A 1 HETATM 9 O O4 PIO . . . J 4 95.64 92.204 117.699 1 110.87 0 O4 PIO 802 A 1 HETATM 10 P P4 PIO . . . J 4 94.87 93.52 118.321 1 110.87 0 P4 PIO 802 A 1 HETATM 11 C C5 PIO . . . J 4 97.589 91.096 116.9 1 110.87 0 C5 PIO 802 A 1 HETATM 12 O O5 PIO . . . J 4 97.997 90.747 118.191 1 110.87 0 O5 PIO 802 A 1 HETATM 13 P P5 PIO . . . J 4 98.351 89.169 118.504 1 110.87 0 P5 PIO 802 A 1 HETATM 14 C C6 PIO . . . J 4 98.822 91.253 116.009 1 110.87 0 C6 PIO 802 A 1 HETATM 15 O O6 PIO . . . J 4 99.448 90.008 115.868 1 110.87 0 O6 PIO 802 A 1 HETATM 16 O O11 PIO . . . J 4 100.929 94.287 113.113 1 110.87 -1 O11 PIO 802 A 1 HETATM 17 O O12 PIO . . . J 4 101.636 92.468 114.243 1 110.87 0 O12 PIO 802 A 1 HETATM 18 O O13 PIO . . . J 4 100.247 92.015 112.132 1 110.87 0 O13 PIO 802 A 1 HETATM 19 C C1A PIO . . . J 4 98.139 92.824 109.465 1 110.87 0 C1A PIO 802 A 1 HETATM 20 O O1A PIO . . . J 4 97.23 92.864 110.223 1 110.87 0 O1A PIO 802 A 1 HETATM 21 C C1B PIO . . . J 4 100.796 90.413 107.23 1 110.87 0 C1B PIO 802 A 1 HETATM 22 O O1B PIO . . . J 4 99.624 90.432 107.06 1 110.87 0 O1B PIO 802 A 1 HETATM 23 C C1C PIO . . . J 4 101.162 92.12 111.082 1 110.87 0 C1C PIO 802 A 1 HETATM 24 C C2A PIO . . . J 4 98.139 93.715 108.227 1 110.87 0 C2A PIO 802 A 1 HETATM 25 C C2B PIO . . . J 4 101.721 89.91 106.124 1 110.87 0 C2B PIO 802 A 1 HETATM 26 C C2C PIO . . . J 4 100.452 92.598 109.819 1 110.87 0 C2C PIO 802 A 1 HETATM 27 O O2C PIO . . . J 4 99.212 91.962 109.709 1 110.87 0 O2C PIO 802 A 1 HETATM 28 C C3A PIO . . . J 4 96.809 93.572 107.493 1 110.87 0 C3A PIO 802 A 1 HETATM 29 C C3B PIO . . . J 4 101.141 88.637 105.509 1 110.87 0 C3B PIO 802 A 1 HETATM 30 C C3C PIO . . . J 4 101.304 92.245 108.603 1 110.87 0 C3C PIO 802 A 1 HETATM 31 O O3C PIO . . . J 4 101.331 90.856 108.445 1 110.87 0 O3C PIO 802 A 1 HETATM 32 O O41 PIO . . . J 4 95.295 94.786 117.735 1 110.87 0 O41 PIO 802 A 1 HETATM 33 O O42 PIO . . . J 4 93.421 93.506 118.138 1 110.87 -1 O42 PIO 802 A 1 HETATM 34 O O43 PIO . . . J 4 95.054 93.698 119.759 1 110.87 0 O43 PIO 802 A 1 HETATM 35 C C4A PIO . . . J 4 97.009 93.912 106.018 1 110.87 0 C4A PIO 802 A 1 HETATM 36 C C4B PIO . . . J 4 100.584 88.942 104.12 1 110.87 0 C4B PIO 802 A 1 HETATM 37 O O51 PIO . . . J 4 97.234 88.403 119.05 1 110.87 0 O51 PIO 802 A 1 HETATM 38 O O52 PIO . . . J 4 99.429 88.98 119.47 1 110.87 -1 O52 PIO 802 A 1 HETATM 39 O O53 PIO . . . J 4 98.778 88.41 117.332 1 110.87 0 O53 PIO 802 A 1 HETATM 40 C C5A PIO . . . J 4 97.5 92.677 105.271 1 110.87 0 C5A PIO 802 A 1 HETATM 41 C C5B PIO . . . J 4 101.735 89.084 103.127 1 110.87 0 C5B PIO 802 A 1 HETATM 42 C C6A PIO . . . J 4 97.69 93.021 103.796 1 110.87 0 C6A PIO 802 A 1 HETATM 43 C C6B PIO . . . J 4 101.377 90.128 102.071 1 110.87 0 C6B PIO 802 A 1 HETATM 44 C C7A PIO . . . J 4 98.161 91.783 103.041 1 110.87 0 C7A PIO 802 A 1 HETATM 45 C C7B PIO . . . J 4 102.529 90.259 101.079 1 110.87 0 C7B PIO 802 A 1 HETATM 46 C C8A PIO . . . J 4 97.802 91.924 101.563 1 110.87 0 C8A PIO 802 A 1 HETATM 47 C C8B PIO . . . J 4 103.575 91.219 101.64 1 110.87 0 C8B PIO 802 A 1 HETATM 48 H H1 PIO . . . J 4 98.728 91.121 113.956 1 110.87 0 H1 PIO 802 A 1 HETATM 49 H H2 PIO . . . J 4 96.477 91.165 114.525 1 110.87 0 H2 PIO 802 A 1 HETATM 50 H H3 PIO . . . J 4 95.486 93.015 115.522 1 110.87 0 H3 PIO 802 A 1 HETATM 51 H H4 PIO . . . J 4 97.363 93.075 117.431 1 110.87 0 H4 PIO 802 A 1 HETATM 52 H H5 PIO . . . J 4 97.015 90.398 116.548 1 110.87 0 H5 PIO 802 A 1 HETATM 53 H H6 PIO . . . J 4 99.437 91.876 116.426 1 110.87 0 H6 PIO 802 A 1 HETATM 54 H H1C PIO . . . J 4 101.856 92.755 111.321 1 110.87 0 H1C PIO 802 A 1 HETATM 55 H H1CA PIO . . . J 4 101.563 91.252 110.916 1 110.87 0 H1CA PIO 802 A 1 HETATM 56 H H3C PIO . . . J 4 100.925 92.654 107.81 1 110.87 0 H3C PIO 802 A 1 HETATM 57 H H3CA PIO . . . J 4 102.207 92.573 108.736 1 110.87 0 H3CA PIO 802 A 1 HETATM 58 H H2A PIO . . . J 4 98.261 94.639 108.495 1 110.87 0 H2A PIO 802 A 1 HETATM 59 H H3A PIO . . . J 4 96.158 94.179 107.879 1 110.87 0 H3A PIO 802 A 1 HETATM 60 H H4A PIO . . . J 4 97.668 94.619 105.937 1 110.87 0 H4A PIO 802 A 1 HETATM 61 H H5A PIO . . . J 4 98.345 92.384 105.645 1 110.87 0 H5A PIO 802 A 1 HETATM 62 H H6A PIO . . . J 4 96.848 93.327 103.425 1 110.87 0 H6A PIO 802 A 1 HETATM 63 H H7A PIO . . . J 4 99.123 91.694 103.132 1 110.87 0 H7A PIO 802 A 1 HETATM 64 H H8A PIO . . . J 4 98.226 92.717 101.201 1 110.87 0 H8A PIO 802 A 1 HETATM 65 H H2AA PIO . . . J 4 98.862 93.452 107.637 1 110.87 0 H2AA PIO 802 A 1 HETATM 66 H H3AA PIO . . . J 4 96.49 92.66 107.575 1 110.87 0 H3AA PIO 802 A 1 HETATM 67 H H4AA PIO . . . J 4 96.168 94.208 105.637 1 110.87 0 H4AA PIO 802 A 1 HETATM 68 H H5AA PIO . . . J 4 96.845 91.965 105.355 1 110.87 0 H5AA PIO 802 A 1 HETATM 69 H H6AA PIO . . . J 4 98.353 93.723 103.712 1 110.87 0 H6AA PIO 802 A 1 HETATM 70 H H7AA PIO . . . J 4 97.727 90.996 103.405 1 110.87 0 H7AA PIO 802 A 1 HETATM 71 H H8AA PIO . . . J 4 98.112 91.142 101.079 1 110.87 0 H8AA PIO 802 A 1 HETATM 72 H H8AB PIO . . . J 4 96.839 92.001 101.471 1 110.87 0 H8AB PIO 802 A 1 HETATM 73 H H2B PIO . . . J 4 101.804 90.593 105.44 1 110.87 0 H2B PIO 802 A 1 HETATM 74 H H3B PIO . . . J 4 101.838 87.967 105.437 1 110.87 0 H3B PIO 802 A 1 HETATM 75 H H4B PIO . . . J 4 100.076 89.769 104.149 1 110.87 0 H4B PIO 802 A 1 HETATM 76 H H5B PIO . . . J 4 102.538 89.362 103.595 1 110.87 0 H5B PIO 802 A 1 HETATM 77 H H6B PIO . . . J 4 100.575 89.85 101.602 1 110.87 0 H6B PIO 802 A 1 HETATM 78 H H7B PIO . . . J 4 102.933 89.39 100.936 1 110.87 0 H7B PIO 802 A 1 HETATM 79 H H8B PIO . . . J 4 103.97 90.836 102.439 1 110.87 0 H8B PIO 802 A 1 HETATM 80 H H2BA PIO . . . J 4 102.596 89.718 106.497 1 110.87 0 H2BA PIO 802 A 1 HETATM 81 H H3BA PIO . . . J 4 100.429 88.3 106.075 1 110.87 0 H3BA PIO 802 A 1 HETATM 82 H H4BA PIO . . . J 4 100.004 88.217 103.839 1 110.87 0 H4BA PIO 802 A 1 HETATM 83 H H5BA PIO . . . J 4 101.895 88.231 102.695 1 110.87 0 H5BA PIO 802 A 1 HETATM 84 H H6BA PIO . . . J 4 101.221 90.983 102.502 1 110.87 0 H6BA PIO 802 A 1 HETATM 85 H H7BA PIO . . . J 4 102.193 90.604 100.237 1 110.87 0 H7BA PIO 802 A 1 HETATM 86 H H8BA PIO . . . J 4 103.155 92.065 101.862 1 110.87 0 H8BA PIO 802 A 1 HETATM 87 H H8BB PIO . . . J 4 104.267 91.367 100.977 1 110.87 0 H8BB PIO 802 A 1 HETATM 88 H H2C PIO . . . J 4 100.325 93.558 109.862 1 110.87 0 H2C PIO 802 A 1 HETATM 89 H HO2 PIO . . . J 4 96 93.089 113.294 1 110.87 0 HO2 PIO 802 A 1 HETATM 90 H HO3 PIO . . . J 4 96.441 94.803 115.531 1 110.87 0 HO3 PIO 802 A 1 HETATM 91 H HO6 PIO . . . J 4 98.859 89.406 115.758 1 110.87 0 HO6 PIO 802 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 91 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 91 #