data_8DIY # _model_server_result.job_id HEJ34NrEHywNTptwJt24xQ _model_server_result.datetime_utc '2024-11-23 06:13:11' _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 8diy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1304}' # _entry.id 8DIY # _exptl.entry_id 8DIY _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 8DIY _cell.length_a 125.06 _cell.length_b 125.06 _cell.length_c 190.743 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DIY _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,G,H,I _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 -125.06 -125.06 0 3 'crystal symmetry operation' 3_455 -y-1,x,z 0 -1 0 1 0 0 0 0 1 -125.06 0 0 4 'crystal symmetry operation' 4_545 y,-x-1,z 0 1 0 -1 0 0 0 0 1 0 -125.06 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 367 n n O1 H1P PX4 sing 368 n n O2 P1 PX4 doub 369 n n P1 O3 PX4 sing 370 n n P1 O4 PX4 sing 371 n n O3 C1 PX4 sing 372 n n C1 C2 PX4 sing 373 n n C1 H1 PX4 sing 374 n n C1 H2 PX4 sing 375 n n C2 N1 PX4 sing 376 n n C2 H3 PX4 sing 377 n n C2 H4 PX4 sing 378 n n N1 C3 PX4 sing 379 n n N1 C4 PX4 sing 380 n n N1 C5 PX4 sing 381 n n C3 H5 PX4 sing 382 n n C3 H6 PX4 sing 383 n n C3 H7 PX4 sing 384 n n C4 H8 PX4 sing 385 n n C4 H9 PX4 sing 386 n n C4 H10 PX4 sing 387 n n C5 H11 PX4 sing 388 n n C5 H12 PX4 sing 389 n n C5 H13 PX4 sing 390 n n O4 C6 PX4 sing 391 n n C6 C7 PX4 sing 392 n n C6 H14 PX4 sing 393 n n C6 H15 PX4 sing 394 n n C7 C8 PX4 sing 395 n n C7 O7 PX4 sing 396 n n C7 H16 PX4 sing 397 n n C8 O5 PX4 sing 398 n n C8 H17 PX4 sing 399 n n C8 H18 PX4 sing 400 n n O5 C9 PX4 sing 401 n n C9 O6 PX4 doub 402 n n C9 C10 PX4 sing 403 n n C10 C11 PX4 sing 404 n n C10 H19 PX4 sing 405 n n C10 H20 PX4 sing 406 n n C11 C12 PX4 sing 407 n n C11 H21 PX4 sing 408 n n C11 H22 PX4 sing 409 n n C12 C13 PX4 sing 410 n n C12 H23 PX4 sing 411 n n C12 H24 PX4 sing 412 n n C13 C14 PX4 sing 413 n n C13 H25 PX4 sing 414 n n C13 H26 PX4 sing 415 n n C14 C15 PX4 sing 416 n n C14 H27 PX4 sing 417 n n C14 H28 PX4 sing 418 n n C15 C16 PX4 sing 419 n n C15 H29 PX4 sing 420 n n C15 H30 PX4 sing 421 n n C16 C17 PX4 sing 422 n n C16 H31 PX4 sing 423 n n C16 H32 PX4 sing 424 n n C17 C18 PX4 sing 425 n n C17 H33 PX4 sing 426 n n C17 H34 PX4 sing 427 n n C18 C19 PX4 sing 428 n n C18 H35 PX4 sing 429 n n C18 H36 PX4 sing 430 n n C19 C20 PX4 sing 431 n n C19 H37 PX4 sing 432 n n C19 H38 PX4 sing 433 n n C20 C21 PX4 sing 434 n n C20 H39 PX4 sing 435 n n C20 H40 PX4 sing 436 n n C21 C22 PX4 sing 437 n n C21 H41 PX4 sing 438 n n C21 H42 PX4 sing 439 n n C22 H43 PX4 sing 440 n n C22 H44 PX4 sing 441 n n C22 H45 PX4 sing 442 n n O7 C23 PX4 sing 443 n n C23 O8 PX4 doub 444 n n C23 C24 PX4 sing 445 n n C24 C25 PX4 sing 446 n n C24 H46 PX4 sing 447 n n C24 H47 PX4 sing 448 n n C25 C26 PX4 sing 449 n n C25 H48 PX4 sing 450 n n C25 H49 PX4 sing 451 n n C26 C27 PX4 sing 452 n n C26 H50 PX4 sing 453 n n C26 H51 PX4 sing 454 n n C27 C28 PX4 sing 455 n n C27 H52 PX4 sing 456 n n C27 H53 PX4 sing 457 n n C28 C29 PX4 sing 458 n n C28 H54 PX4 sing 459 n n C28 H55 PX4 sing 460 n n C29 C30 PX4 sing 461 n n C29 H56 PX4 sing 462 n n C29 H57 PX4 sing 463 n n C30 C31 PX4 sing 464 n n C30 H58 PX4 sing 465 n n C30 H59 PX4 sing 466 n n C31 C32 PX4 sing 467 n n C31 H60 PX4 sing 468 n n C31 H61 PX4 sing 469 n n C32 C33 PX4 sing 470 n n C32 H62 PX4 sing 471 n n C32 H63 PX4 sing 472 n n C33 C34 PX4 sing 473 n n C33 H64 PX4 sing 474 n n C33 H65 PX4 sing 475 n n C34 C35 PX4 sing 476 n n C34 H66 PX4 sing 477 n n C34 H67 PX4 sing 478 n n C35 C36 PX4 sing 479 n n C35 H68 PX4 sing 480 n n C35 H69 PX4 sing 481 n n C36 H70 PX4 sing 482 n n C36 H71 PX4 sing 483 n n C36 H72 PX4 sing 484 n n # _atom_sites.entry_id 8DIY _atom_sites.fract_transf_matrix[1][1] 0.007996 _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] 0.007996 _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] 0.005243 _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 1 PX4 PX4 . C 2 PX4 A 1 1302 2 PX4 PX4 . D 2 PX4 A 1 1303 3 PX4 PX4 . E 2 PX4 A 1 1304 4 PX4 PX4 . F 2 PX4 A 1 1305 5 PX4 PX4 . G 3 CPS A 1 1306 1 CPS CPS . H 3 CPS A 1 1307 2 CPS CPS . I 4 HOH A 1 1401 3 HOH HOH . I 4 HOH A 2 1402 2 HOH HOH . I 4 HOH A 3 1403 1 HOH HOH . # 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 . . . E 2 -50.28 -34.819 -88.518 1 143.72 ? O1 PX4 1304 A 1 HETATM 2 O O2 PX4 . . . E 2 -47.775 -34.576 -87.847 1 126.23 ? O2 PX4 1304 A 1 HETATM 3 P P1 PX4 . . . E 2 -48.956 -35.448 -88.17 1 116.52 ? P1 PX4 1304 A 1 HETATM 4 O O3 PX4 . . . E 2 -48.599 -36.354 -89.449 1 128.08 ? O3 PX4 1304 A 1 HETATM 5 C C1 PX4 . . . E 2 -47.213 -36.662 -89.774 1 121.24 ? C1 PX4 1304 A 1 HETATM 6 C C2 PX4 . . . E 2 -47.083 -37.141 -91.205 1 156.16 ? C2 PX4 1304 A 1 HETATM 7 N N1 PX4 . . . E 2 -47.599 -38.531 -91.542 1 155.31 ? N1 PX4 1304 A 1 HETATM 8 C C3 PX4 . . . E 2 -47.209 -39.489 -90.473 1 140.74 ? C3 PX4 1304 A 1 HETATM 9 C C4 PX4 . . . E 2 -49.082 -38.534 -91.691 1 119.06 ? C4 PX4 1304 A 1 HETATM 10 C C5 PX4 . . . E 2 -46.994 -38.987 -92.826 1 141.83 ? C5 PX4 1304 A 1 HETATM 11 O O4 PX4 . . . E 2 -49.216 -36.477 -86.962 1 82.87 ? O4 PX4 1304 A 1 HETATM 12 C C6 PX4 . . . E 2 -50.25 -36.17 -85.969 1 84.34 ? C6 PX4 1304 A 1 HETATM 13 C C7 PX4 . . . E 2 -50.311 -37.226 -84.882 1 84.36 ? C7 PX4 1304 A 1 HETATM 14 C C8 PX4 . . . E 2 -49.092 -37.218 -83.979 1 93.2 ? C8 PX4 1304 A 1 HETATM 15 O O5 PX4 . . . E 2 -49.148 -36.125 -83.029 1 83.33 ? O5 PX4 1304 A 1 HETATM 16 C C9 PX4 . . . E 2 -48.163 -36.104 -82.127 1 92.93 ? C9 PX4 1304 A 1 HETATM 17 O O6 PX4 . . . E 2 -47.038 -36.474 -82.352 1 103.27 ? O6 PX4 1304 A 1 HETATM 18 C C10 PX4 . . . E 2 -48.633 -35.677 -80.77 1 78.51 ? C10 PX4 1304 A 1 HETATM 19 C C11 PX4 . . . E 2 -47.645 -35.996 -79.68 1 67.37 ? C11 PX4 1304 A 1 HETATM 20 C C12 PX4 . . . E 2 -48.202 -35.68 -78.307 1 71.26 ? C12 PX4 1304 A 1 HETATM 21 C C13 PX4 . . . E 2 -47.254 -35.903 -77.165 1 74.27 ? C13 PX4 1304 A 1 HETATM 22 C C14 PX4 . . . E 2 -47.935 -35.862 -75.818 1 63.85 ? C14 PX4 1304 A 1 HETATM 23 C C15 PX4 . . . E 2 -47.057 -36.313 -74.677 1 82.74 ? C15 PX4 1304 A 1 HETATM 24 C C16 PX4 . . . E 2 -47.812 -36.663 -73.42 1 79.5 ? C16 PX4 1304 A 1 HETATM 25 C C17 PX4 . . . E 2 -47.043 -37.535 -72.442 1 85.11 ? C17 PX4 1304 A 1 HETATM 26 C C18 PX4 . . . E 2 -45.949 -36.826 -71.691 1 72.86 ? C18 PX4 1304 A 1 HETATM 27 C C19 PX4 . . . E 2 -45.4 -37.585 -70.5 1 75.5 ? C19 PX4 1304 A 1 HETATM 28 C C20 PX4 . . . E 2 -44.414 -38.669 -70.845 1 79.1 ? C20 PX4 1304 A 1 HETATM 29 C C21 PX4 . . . E 2 -43.492 -39.043 -69.712 1 73.81 ? C21 PX4 1304 A 1 HETATM 30 C C22 PX4 . . . E 2 -42.493 -40.125 -70.061 1 74.95 ? C22 PX4 1304 A 1 HETATM 31 O O7 PX4 . . . E 2 -51.551 -37.13 -84.105 1 96.87 ? O7 PX4 1304 A 1 HETATM 32 C C23 PX4 . . . E 2 -51.817 -38.061 -83.158 1 85.67 ? C23 PX4 1304 A 1 HETATM 33 O O8 PX4 . . . E 2 -51.387 -39.175 -83.21 1 90.34 ? O8 PX4 1304 A 1 HETATM 34 C C24 PX4 . . . E 2 -52.647 -37.624 -81.976 1 73.57 ? C24 PX4 1304 A 1 HETATM 35 C C25 PX4 . . . E 2 -51.847 -37.49 -80.701 1 86.1 ? C25 PX4 1304 A 1 HETATM 36 C C26 PX4 . . . E 2 -52.151 -38.534 -79.618 1 86.01 ? C26 PX4 1304 A 1 HETATM 37 C C27 PX4 . . . E 2 -51.498 -38.19 -78.276 1 94.71 ? C27 PX4 1304 A 1 HETATM 38 C C28 PX4 . . . E 2 -51.715 -39.153 -77.119 1 82.17 ? C28 PX4 1304 A 1 HETATM 39 C C29 PX4 . . . E 2 -51.165 -38.656 -75.786 1 85.05 ? C29 PX4 1304 A 1 HETATM 40 C C30 PX4 . . . E 2 -51.201 -39.657 -74.634 1 93.38 ? C30 PX4 1304 A 1 HETATM 41 C C31 PX4 . . . E 2 -50.745 -39.097 -73.288 1 72.13 ? C31 PX4 1304 A 1 HETATM 42 C C32 PX4 . . . E 2 -50.306 -40.136 -72.261 1 72.9 ? C32 PX4 1304 A 1 HETATM 43 C C33 PX4 . . . E 2 -49.763 -39.547 -70.966 1 73.39 ? C33 PX4 1304 A 1 HETATM 44 C C34 PX4 . . . E 2 -49.185 -40.537 -69.963 1 78.94 ? C34 PX4 1304 A 1 HETATM 45 C C35 PX4 . . . E 2 -48.826 -39.899 -68.628 1 82.03 ? C35 PX4 1304 A 1 HETATM 46 C C36 PX4 . . . E 2 -48.397 -40.766 -67.454 1 53.32 ? C36 PX4 1304 A 1 # _model_server_stats.io_time_ms 47 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 46 #