data_8DIZ # _model_server_result.job_id pnLWff00L4HLb_ryNRpTDQ _model_server_result.datetime_utc '2024-11-14 17:38:27' _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 8diz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1301}' # _entry.id 8DIZ # _exptl.entry_id 8DIZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 678.94 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHOCHOLINE _entity.pdbx_number_of_molecules 5 _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 8DIZ _cell.length_a 124.76 _cell.length_b 124.76 _cell.length_c 192.426 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DIZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall 'I 4 2' _symmetry.space_group_name_H-M 'I 4 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_445 -x-1,-y-1,z -1 0 0 0 -1 0 0 0 1 -124.76 -124.76 0 3 'crystal symmetry operation' 3_455 -y-1,x,z 0 -1 0 1 0 0 0 0 1 -124.76 0 0 4 'crystal symmetry operation' 4_545 y,-x-1,z 0 1 0 -1 0 0 0 0 1 0 -124.76 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N # _chem_comp.formula 'C36 H73 N O8 P 1' _chem_comp.formula_weight 678.94 _chem_comp.id PX4 _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHOCHOLINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O1 P1 PX4 sing 262 n n O1 H1P PX4 sing 263 n n O2 P1 PX4 doub 264 n n P1 O3 PX4 sing 265 n n P1 O4 PX4 sing 266 n n O3 C1 PX4 sing 267 n n C1 C2 PX4 sing 268 n n C1 H1 PX4 sing 269 n n C1 H2 PX4 sing 270 n n C2 N1 PX4 sing 271 n n C2 H3 PX4 sing 272 n n C2 H4 PX4 sing 273 n n N1 C3 PX4 sing 274 n n N1 C4 PX4 sing 275 n n N1 C5 PX4 sing 276 n n C3 H5 PX4 sing 277 n n C3 H6 PX4 sing 278 n n C3 H7 PX4 sing 279 n n C4 H8 PX4 sing 280 n n C4 H9 PX4 sing 281 n n C4 H10 PX4 sing 282 n n C5 H11 PX4 sing 283 n n C5 H12 PX4 sing 284 n n C5 H13 PX4 sing 285 n n O4 C6 PX4 sing 286 n n C6 C7 PX4 sing 287 n n C6 H14 PX4 sing 288 n n C6 H15 PX4 sing 289 n n C7 C8 PX4 sing 290 n n C7 O7 PX4 sing 291 n n C7 H16 PX4 sing 292 n n C8 O5 PX4 sing 293 n n C8 H17 PX4 sing 294 n n C8 H18 PX4 sing 295 n n O5 C9 PX4 sing 296 n n C9 O6 PX4 doub 297 n n C9 C10 PX4 sing 298 n n C10 C11 PX4 sing 299 n n C10 H19 PX4 sing 300 n n C10 H20 PX4 sing 301 n n C11 C12 PX4 sing 302 n n C11 H21 PX4 sing 303 n n C11 H22 PX4 sing 304 n n C12 C13 PX4 sing 305 n n C12 H23 PX4 sing 306 n n C12 H24 PX4 sing 307 n n C13 C14 PX4 sing 308 n n C13 H25 PX4 sing 309 n n C13 H26 PX4 sing 310 n n C14 C15 PX4 sing 311 n n C14 H27 PX4 sing 312 n n C14 H28 PX4 sing 313 n n C15 C16 PX4 sing 314 n n C15 H29 PX4 sing 315 n n C15 H30 PX4 sing 316 n n C16 C17 PX4 sing 317 n n C16 H31 PX4 sing 318 n n C16 H32 PX4 sing 319 n n C17 C18 PX4 sing 320 n n C17 H33 PX4 sing 321 n n C17 H34 PX4 sing 322 n n C18 C19 PX4 sing 323 n n C18 H35 PX4 sing 324 n n C18 H36 PX4 sing 325 n n C19 C20 PX4 sing 326 n n C19 H37 PX4 sing 327 n n C19 H38 PX4 sing 328 n n C20 C21 PX4 sing 329 n n C20 H39 PX4 sing 330 n n C20 H40 PX4 sing 331 n n C21 C22 PX4 sing 332 n n C21 H41 PX4 sing 333 n n C21 H42 PX4 sing 334 n n C22 H43 PX4 sing 335 n n C22 H44 PX4 sing 336 n n C22 H45 PX4 sing 337 n n O7 C23 PX4 sing 338 n n C23 O8 PX4 doub 339 n n C23 C24 PX4 sing 340 n n C24 C25 PX4 sing 341 n n C24 H46 PX4 sing 342 n n C24 H47 PX4 sing 343 n n C25 C26 PX4 sing 344 n n C25 H48 PX4 sing 345 n n C25 H49 PX4 sing 346 n n C26 C27 PX4 sing 347 n n C26 H50 PX4 sing 348 n n C26 H51 PX4 sing 349 n n C27 C28 PX4 sing 350 n n C27 H52 PX4 sing 351 n n C27 H53 PX4 sing 352 n n C28 C29 PX4 sing 353 n n C28 H54 PX4 sing 354 n n C28 H55 PX4 sing 355 n n C29 C30 PX4 sing 356 n n C29 H56 PX4 sing 357 n n C29 H57 PX4 sing 358 n n C30 C31 PX4 sing 359 n n C30 H58 PX4 sing 360 n n C30 H59 PX4 sing 361 n n C31 C32 PX4 sing 362 n n C31 H60 PX4 sing 363 n n C31 H61 PX4 sing 364 n n C32 C33 PX4 sing 365 n n C32 H62 PX4 sing 366 n n C32 H63 PX4 sing 367 n n C33 C34 PX4 sing 368 n n C33 H64 PX4 sing 369 n n C33 H65 PX4 sing 370 n n C34 C35 PX4 sing 371 n n C34 H66 PX4 sing 372 n n C34 H67 PX4 sing 373 n n C35 C36 PX4 sing 374 n n C35 H68 PX4 sing 375 n n C35 H69 PX4 sing 376 n n C36 H70 PX4 sing 377 n n C36 H71 PX4 sing 378 n n C36 H72 PX4 sing 379 n n # _atom_sites.entry_id 8DIZ _atom_sites.fract_transf_matrix[1][1] 0.008015 _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] 0.008015 _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] 0.005197 _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 B 2 PX4 A 1 1301 1301 PX4 PX4 . C 2 PX4 A 1 1302 1401 PX4 PX4 . D 2 PX4 A 1 1303 1501 PX4 PX4 . E 2 PX4 A 1 1304 1601 PX4 PX4 . F 2 PX4 A 1 1305 1701 PX4 PX4 . # 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 O1 PX4 . . . B 2 -35.545 -57.123 -89.496 1 56.94 ? O1 PX4 1301 A 1 HETATM 2 O O2 PX4 . . . B 2 -35.272 -54.633 -90.276 1 67.18 ? O2 PX4 1301 A 1 HETATM 3 P P1 PX4 . . . B 2 -36.136 -55.85 -90.044 1 86.77 ? P1 PX4 1301 A 1 HETATM 4 O O3 PX4 . . . B 2 -36.943 -56.264 -91.376 1 71.43 ? O3 PX4 1301 A 1 HETATM 5 C C1 PX4 . . . B 2 -36.698 -55.551 -92.625 1 70.04 ? C1 PX4 1301 A 1 HETATM 6 C C2 PX4 . . . B 2 -37.425 -56.219 -93.767 1 67.55 ? C2 PX4 1301 A 1 HETATM 7 N N1 PX4 . . . B 2 -37.344 -55.508 -95.103 1 73.41 ? N1 PX4 1301 A 1 HETATM 8 C C3 PX4 . . . B 2 -35.933 -55.471 -95.581 1 78.47 ? C3 PX4 1301 A 1 HETATM 9 C C4 PX4 . . . B 2 -38.184 -56.22 -96.112 1 72.37 ? C4 PX4 1301 A 1 HETATM 10 C C5 PX4 . . . B 2 -37.833 -54.109 -94.947 1 75.07 ? C5 PX4 1301 A 1 HETATM 11 O O4 PX4 . . . B 2 -37.258 -55.379 -88.992 1 60.94 ? O4 PX4 1301 A 1 HETATM 12 C C6 PX4 . . . B 2 -36.993 -54.214 -88.161 1 43.33 ? C6 PX4 1301 A 1 HETATM 13 C C7 PX4 . . . B 2 -37.309 -54.521 -86.716 1 37.47 ? C7 PX4 1301 A 1 HETATM 14 C C8 PX4 . . . B 2 -38.734 -54.227 -86.297 1 33.65 ? C8 PX4 1301 A 1 HETATM 15 O O5 PX4 . . . B 2 -39.484 -55.45 -86.124 1 35.48 ? O5 PX4 1301 A 1 HETATM 16 C C9 PX4 . . . B 2 -39.438 -56.099 -84.952 1 37.31 ? C9 PX4 1301 A 1 HETATM 17 O O6 PX4 . . . B 2 -39.76 -57.249 -84.818 1 39.9 ? O6 PX4 1301 A 1 HETATM 18 C C10 PX4 . . . B 2 -39.008 -55.282 -83.769 1 36.73 ? C10 PX4 1301 A 1 HETATM 19 C C11 PX4 . . . B 2 -38.858 -56.145 -82.544 1 32.02 ? C11 PX4 1301 A 1 HETATM 20 C C12 PX4 . . . B 2 -38.291 -55.415 -81.339 1 36.38 ? C12 PX4 1301 A 1 HETATM 21 C C13 PX4 . . . B 2 -39.273 -55.236 -80.206 1 36.28 ? C13 PX4 1301 A 1 HETATM 22 C C14 PX4 . . . B 2 -38.666 -54.762 -78.898 1 32.63 ? C14 PX4 1301 A 1 HETATM 23 C C15 PX4 . . . B 2 -39.683 -54.612 -77.801 1 26.46 ? C15 PX4 1301 A 1 HETATM 24 C C16 PX4 . . . B 2 -39.138 -54.49 -76.409 1 38.34 ? C16 PX4 1301 A 1 HETATM 25 C C17 PX4 . . . B 2 -40.212 -54.628 -75.359 1 41.31 ? C17 PX4 1301 A 1 HETATM 26 C C18 PX4 . . . B 2 -39.75 -54.388 -73.95 1 50.55 ? C18 PX4 1301 A 1 HETATM 27 C C19 PX4 . . . B 2 -40.841 -54.531 -72.914 1 53.38 ? C19 PX4 1301 A 1 HETATM 28 O O7 PX4 . . . B 2 -36.976 -55.9 -86.406 1 46.3 ? O7 PX4 1301 A 1 HETATM 29 C C23 PX4 . . . B 2 -35.727 -56.182 -85.98 1 48.37 ? C23 PX4 1301 A 1 HETATM 30 O O8 PX4 . . . B 2 -34.725 -55.738 -86.474 1 50.67 ? O8 PX4 1301 A 1 HETATM 31 C C24 PX4 . . . B 2 -35.738 -57.048 -84.753 1 40.23 ? C24 PX4 1301 A 1 HETATM 32 C C25 PX4 . . . B 2 -34.46 -57.776 -84.524 1 33.04 ? C25 PX4 1301 A 1 HETATM 33 C C26 PX4 . . . B 2 -34.424 -58.418 -83.153 1 32.26 ? C26 PX4 1301 A 1 HETATM 34 C C27 PX4 . . . B 2 -34.763 -57.466 -82.029 1 37 ? C27 PX4 1301 A 1 HETATM 35 C C28 PX4 . . . B 2 -34.56 -58.043 -80.651 1 40.26 ? C28 PX4 1301 A 1 HETATM 36 C C29 PX4 . . . B 2 -35.006 -57.158 -79.505 1 32.66 ? C29 PX4 1301 A 1 HETATM 37 C C30 PX4 . . . B 2 -34.992 -57.886 -78.183 1 38.47 ? C30 PX4 1301 A 1 HETATM 38 C C31 PX4 . . . B 2 -35.697 -57.19 -77.051 1 41.91 ? C31 PX4 1301 A 1 HETATM 39 C C32 PX4 . . . B 2 -34.907 -56.082 -76.397 1 42.69 ? C32 PX4 1301 A 1 HETATM 40 C C33 PX4 . . . B 2 -35.564 -55.553 -75.146 1 48.94 ? C33 PX4 1301 A 1 HETATM 41 C C34 PX4 . . . B 2 -34.61 -55.128 -74.054 1 48.22 ? C34 PX4 1301 A 1 HETATM 42 C C35 PX4 . . . B 2 -35.326 -54.97 -72.735 1 47.02 ? C35 PX4 1301 A 1 HETATM 43 C C36 PX4 . . . B 2 -36.446 -53.958 -72.775 1 46.43 ? C36 PX4 1301 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #