data_7ZZE # _model_server_result.job_id vpt2BeGIUxRpx-cGENR9YQ _model_server_result.datetime_utc '2025-01-26 02:35:35' _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 7zze # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 7ZZE # _exptl.entry_id 7ZZE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 708.685 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1~{R},25~{R},26~{S},27~{R})-14-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-7-azanyl-26,27-bis(oxidanyl)-28-oxa-2,4,6,9,14,17,21,23-octazatetracyclo[23.2.1.0^{2,10}.0^{3,8}]octacosa-3(8),4,6,9-tetraen-11-yne-16,22-dione _entity.pdbx_number_of_molecules 1 _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 7ZZE _cell.length_a 63.134 _cell.length_b 74.526 _cell.length_c 118.438 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7ZZE _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall 'I 2 2' _symmetry.space_group_name_H-M 'I 2 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 _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_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 63.134 0 0 3 'crystal symmetry operation' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 63.134 0 0 4 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C29 H36 N14 O8' _chem_comp.formula_weight 708.685 _chem_comp.id OVL _chem_comp.mon_nstd_flag . _chem_comp.name (1~{R},25~{R},26~{S},27~{R})-14-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-7-azanyl-26,27-bis(oxidanyl)-28-oxa-2,4,6,9,14,17,21,23-octazatetracyclo[23.2.1.0^{2,10}.0^{3,8}]octacosa-3(8),4,6,9-tetraen-11-yne-16,22-dione _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 N39 C38 OVL sing 257 n n N32 C33 OVL sing 258 n y N32 C31 OVL doub 259 n y C38 C33 OVL doub 260 n y C38 N37 OVL sing 261 n y C33 C34 OVL sing 262 n y C31 N30 OVL sing 263 n y N37 C36 OVL doub 264 n y O29 C26 OVL sing 265 n n C26 C27 OVL sing 266 n n C26 C25 OVL sing 267 n n O28 C27 OVL sing 268 n n C34 N30 OVL sing 269 n y C34 N35 OVL doub 270 n y N30 C25 OVL sing 271 n n C27 C23 OVL sing 272 n n C36 N35 OVL sing 273 n y C25 O24 OVL sing 274 n n C05 C06 OVL sing 275 n n C05 C04 OVL sing 276 n n O24 C23 OVL sing 277 n n C23 C22 OVL sing 278 n n C06 N07 OVL sing 279 n n C22 N20 OVL sing 280 n n N07 C08 OVL sing 281 n n N47 C46 OVL sing 282 n n C04 N03 OVL sing 283 n n N03 C02 OVL sing 284 n n C46 N45 OVL doub 285 n y C46 C41 OVL sing 286 n y C02 C21 OVL sing 287 n n C02 O01 OVL doub 288 n n C21 N20 OVL sing 289 n n N20 C19 OVL sing 290 n n N45 C44 OVL sing 291 n y N40 C41 OVL sing 292 n y N40 C16 OVL doub 293 n y C08 N10 OVL sing 294 n n C08 O09 OVL doub 295 n n C41 C42 OVL doub 296 n y N10 C11 OVL sing 297 n n C44 N43 OVL doub 298 n y C16 C17 OVL sing 299 n n C16 N15 OVL sing 300 n y C17 C18 OVL trip 301 n n C42 N43 OVL sing 302 n y C42 N15 OVL sing 303 n y C18 C19 OVL sing 304 n n N15 C14 OVL sing 305 n n O13 C14 OVL sing 306 n n O13 C12 OVL sing 307 n n C14 C48 OVL sing 308 n n C11 C12 OVL sing 309 n n C12 C49 OVL sing 310 n n C48 C49 OVL sing 311 n n C48 O51 OVL sing 312 n n C49 O50 OVL sing 313 n n C21 H1 OVL sing 314 n n C21 H2 OVL sing 315 n n C22 H3 OVL sing 316 n n C22 H4 OVL sing 317 n n C26 H5 OVL sing 318 n n C04 H6 OVL sing 319 n n C04 H7 OVL sing 320 n n C05 H8 OVL sing 321 n n C05 H9 OVL sing 322 n n C06 H10 OVL sing 323 n n C06 H11 OVL sing 324 n n C11 H12 OVL sing 325 n n C11 H13 OVL sing 326 n n C12 H14 OVL sing 327 n n C14 H15 OVL sing 328 n n C19 H16 OVL sing 329 n n C19 H17 OVL sing 330 n n C23 H18 OVL sing 331 n n C25 H19 OVL sing 332 n n C27 H20 OVL sing 333 n n C31 H21 OVL sing 334 n n C36 H22 OVL sing 335 n n C44 H23 OVL sing 336 n n C48 H24 OVL sing 337 n n C49 H25 OVL sing 338 n n N03 H26 OVL sing 339 n n N07 H27 OVL sing 340 n n N10 H28 OVL sing 341 n n N39 H30 OVL sing 342 n n N39 H31 OVL sing 343 n n N47 H32 OVL sing 344 n n N47 H33 OVL sing 345 n n O28 H34 OVL sing 346 n n O29 H35 OVL sing 347 n n O50 H36 OVL sing 348 n n O51 H37 OVL sing 349 n n # _atom_sites.entry_id 7ZZE _atom_sites.fract_transf_matrix[1][1] 0.015839 _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] 0.013418 _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] 0.008443 _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 CIT A 1 301 265 CIT CIT . C 3 OVL A 1 302 1 OVL LIG . D 4 HOH A 1 401 119 HOH HOH . D 4 HOH A 2 402 94 HOH HOH . D 4 HOH A 3 403 90 HOH HOH . D 4 HOH A 4 404 85 HOH HOH . D 4 HOH A 5 405 69 HOH HOH . D 4 HOH A 6 406 42 HOH HOH . D 4 HOH A 7 407 81 HOH HOH . D 4 HOH A 8 408 98 HOH HOH . D 4 HOH A 9 409 6 HOH HOH . D 4 HOH A 10 410 121 HOH HOH . D 4 HOH A 11 411 15 HOH HOH . D 4 HOH A 12 412 31 HOH HOH . D 4 HOH A 13 413 105 HOH HOH . D 4 HOH A 14 414 100 HOH HOH . D 4 HOH A 15 415 2 HOH HOH . D 4 HOH A 16 416 3 HOH HOH . D 4 HOH A 17 417 37 HOH HOH . D 4 HOH A 18 418 23 HOH HOH . D 4 HOH A 19 419 38 HOH HOH . D 4 HOH A 20 420 73 HOH HOH . D 4 HOH A 21 421 48 HOH HOH . D 4 HOH A 22 422 13 HOH HOH . D 4 HOH A 23 423 1 HOH HOH . D 4 HOH A 24 424 40 HOH HOH . D 4 HOH A 25 425 7 HOH HOH . D 4 HOH A 26 426 24 HOH HOH . D 4 HOH A 27 427 9 HOH HOH . D 4 HOH A 28 428 17 HOH HOH . D 4 HOH A 29 429 47 HOH HOH . D 4 HOH A 30 430 91 HOH HOH . D 4 HOH A 31 431 41 HOH HOH . D 4 HOH A 32 432 46 HOH HOH . D 4 HOH A 33 433 18 HOH HOH . D 4 HOH A 34 434 115 HOH HOH . D 4 HOH A 35 435 50 HOH HOH . D 4 HOH A 36 436 25 HOH HOH . D 4 HOH A 37 437 72 HOH HOH . D 4 HOH A 38 438 28 HOH HOH . D 4 HOH A 39 439 10 HOH HOH . D 4 HOH A 40 440 16 HOH HOH . D 4 HOH A 41 441 8 HOH HOH . D 4 HOH A 42 442 36 HOH HOH . D 4 HOH A 43 443 110 HOH HOH . D 4 HOH A 44 444 97 HOH HOH . D 4 HOH A 45 445 11 HOH HOH . D 4 HOH A 46 446 29 HOH HOH . D 4 HOH A 47 447 78 HOH HOH . D 4 HOH A 48 448 4 HOH HOH . D 4 HOH A 49 449 27 HOH HOH . D 4 HOH A 50 450 96 HOH HOH . D 4 HOH A 51 451 67 HOH HOH . D 4 HOH A 52 452 61 HOH HOH . D 4 HOH A 53 453 70 HOH HOH . D 4 HOH A 54 454 65 HOH HOH . D 4 HOH A 55 455 84 HOH HOH . D 4 HOH A 56 456 14 HOH HOH . D 4 HOH A 57 457 55 HOH HOH . D 4 HOH A 58 458 12 HOH HOH . D 4 HOH A 59 459 57 HOH HOH . D 4 HOH A 60 460 5 HOH HOH . D 4 HOH A 61 461 39 HOH HOH . D 4 HOH A 62 462 19 HOH HOH . D 4 HOH A 63 463 120 HOH HOH . D 4 HOH A 64 464 77 HOH HOH . D 4 HOH A 65 465 109 HOH HOH . D 4 HOH A 66 466 107 HOH HOH . D 4 HOH A 67 467 20 HOH HOH . D 4 HOH A 68 468 30 HOH HOH . D 4 HOH A 69 469 33 HOH HOH . D 4 HOH A 70 470 21 HOH HOH . D 4 HOH A 71 471 43 HOH HOH . D 4 HOH A 72 472 45 HOH HOH . D 4 HOH A 73 473 52 HOH HOH . D 4 HOH A 74 474 64 HOH HOH . D 4 HOH A 75 475 32 HOH HOH . D 4 HOH A 76 476 54 HOH HOH . D 4 HOH A 77 477 113 HOH HOH . D 4 HOH A 78 478 44 HOH HOH . D 4 HOH A 79 479 95 HOH HOH . D 4 HOH A 80 480 68 HOH HOH . D 4 HOH A 81 481 102 HOH HOH . D 4 HOH A 82 482 79 HOH HOH . D 4 HOH A 83 483 75 HOH HOH . D 4 HOH A 84 484 117 HOH HOH . D 4 HOH A 85 485 49 HOH HOH . D 4 HOH A 86 486 93 HOH HOH . D 4 HOH A 87 487 60 HOH HOH . D 4 HOH A 88 488 82 HOH HOH . D 4 HOH A 89 489 116 HOH HOH . D 4 HOH A 90 490 35 HOH HOH . D 4 HOH A 91 491 88 HOH HOH . D 4 HOH A 92 492 101 HOH HOH . D 4 HOH A 93 493 118 HOH HOH . D 4 HOH A 94 494 76 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 C C17 OVL . . . C 3 17.207 10.731 13.039 1 25.63 ? C17 OVL 302 A 1 HETATM 2 C C21 OVL . . . C 3 12.442 8.923 12.015 1 40.01 ? C21 OVL 302 A 1 HETATM 3 C C22 OVL . . . C 3 14.151 10.002 10.8 1 31.88 ? C22 OVL 302 A 1 HETATM 4 C C26 OVL . . . C 3 16.864 9.404 8.004 1 27.24 ? C26 OVL 302 A 1 HETATM 5 C C02 OVL . . . C 3 12.174 7.343 11.935 1 40.57 ? C02 OVL 302 A 1 HETATM 6 C C04 OVL . . . C 3 12.997 4.992 11.215 1 42.13 ? C04 OVL 302 A 1 HETATM 7 C C05 OVL . . . C 3 13.71 4.277 10.042 1 40.08 ? C05 OVL 302 A 1 HETATM 8 C C06 OVL . . . C 3 15.317 4.258 10.199 1 36.97 ? C06 OVL 302 A 1 HETATM 9 C C08 OVL . . . C 3 16.162 5.633 12.27 1 35.24 ? C08 OVL 302 A 1 HETATM 10 C C11 OVL . . . C 3 17.022 7.146 14.234 1 29.46 ? C11 OVL 302 A 1 HETATM 11 C C12 OVL . . . C 3 18.545 7.21 14.531 1 34.74 ? C12 OVL 302 A 1 HETATM 12 C C14 OVL . . . C 3 19.834 9.122 14.188 1 29.85 ? C14 OVL 302 A 1 HETATM 13 C C16 OVL . . . C 3 18.786 11.132 12.895 1 29.91 ? C16 OVL 302 A 1 HETATM 14 C C18 OVL . . . C 3 16.02 10.446 13.156 1 33.16 ? C18 OVL 302 A 1 HETATM 15 C C19 OVL . . . C 3 14.454 10.113 13.383 1 35.09 ? C19 OVL 302 A 1 HETATM 16 C C23 OVL . . . C 3 15.624 9.907 10.155 1 31.15 ? C23 OVL 302 A 1 HETATM 17 C C25 OVL . . . C 3 17.122 8.39 9.068 1 32.26 ? C25 OVL 302 A 1 HETATM 18 C C27 OVL . . . C 3 15.638 10.119 8.579 1 26.65 ? C27 OVL 302 A 1 HETATM 19 C C31 OVL . . . C 3 15.971 6.478 7.636 1 29.5 ? C31 OVL 302 A 1 HETATM 20 C C33 OVL . . . C 3 17.683 5.06 7.553 1 28.94 ? C33 OVL 302 A 1 HETATM 21 C C34 OVL . . . C 3 18.12 6.188 8.304 1 28.12 ? C34 OVL 302 A 1 HETATM 22 C C36 OVL . . . C 3 20.224 5.238 8.611 1 26.88 ? C36 OVL 302 A 1 HETATM 23 C C38 OVL . . . C 3 18.653 3.961 7.349 1 29.6 ? C38 OVL 302 A 1 HETATM 24 C C41 OVL . . . C 3 20.684 12.272 12.321 1 28.04 ? C41 OVL 302 A 1 HETATM 25 C C42 OVL . . . C 3 21.103 11.116 13.05 1 26.82 ? C42 OVL 302 A 1 HETATM 26 C C44 OVL . . . C 3 23.375 11.68 12.845 1 29.06 ? C44 OVL 302 A 1 HETATM 27 C C46 OVL . . . C 3 21.756 13.177 11.833 1 25.56 ? C46 OVL 302 A 1 HETATM 28 C C48 OVL . . . C 3 19.033 9.326 15.484 1 32.55 ? C48 OVL 302 A 1 HETATM 29 C C49 OVL . . . C 3 18.827 7.864 15.913 1 28.2 ? C49 OVL 302 A 1 HETATM 30 N N03 OVL . . . C 3 13.15 6.481 11.347 1 38.53 ? N03 OVL 302 A 1 HETATM 31 N N07 OVL . . . C 3 15.857 5.497 10.825 1 36 ? N07 OVL 302 A 1 HETATM 32 N N10 OVL . . . C 3 16.656 6.873 12.8 1 33.92 ? N10 OVL 302 A 1 HETATM 33 N N15 OVL . . . C 3 19.909 10.389 13.428 1 29.25 ? N15 OVL 302 A 1 HETATM 34 N N20 OVL . . . C 3 13.919 9.256 12.083 1 36.87 ? N20 OVL 302 A 1 HETATM 35 N N30 OVL . . . C 3 17.022 7.119 8.369 1 30.18 ? N30 OVL 302 A 1 HETATM 36 N N32 OVL . . . C 3 16.344 5.286 7.158 1 31.07 ? N32 OVL 302 A 1 HETATM 37 N N35 OVL . . . C 3 19.409 6.272 8.837 1 26.43 ? N35 OVL 302 A 1 HETATM 38 N N37 OVL . . . C 3 19.904 4.08 7.884 1 26.31 ? N37 OVL 302 A 1 HETATM 39 N N39 OVL . . . C 3 18.315 2.772 6.604 1 26.66 ? N39 OVL 302 A 1 HETATM 40 N N40 OVL . . . C 3 19.258 12.24 12.253 1 28.24 ? N40 OVL 302 A 1 HETATM 41 N N43 OVL . . . C 3 22.442 10.848 13.292 1 27.29 ? N43 OVL 302 A 1 HETATM 42 N N45 OVL . . . C 3 23.071 12.829 12.137 1 28.6 ? N45 OVL 302 A 1 HETATM 43 N N47 OVL . . . C 3 21.468 14.37 11.091 1 29.22 ? N47 OVL 302 A 1 HETATM 44 O O01 OVL . . . C 3 11.128 6.915 12.373 1 50.87 ? O01 OVL 302 A 1 HETATM 45 O O09 OVL . . . C 3 15.987 4.676 13.018 1 34.82 ? O09 OVL 302 A 1 HETATM 46 O O13 OVL . . . C 3 19.196 8.021 13.564 1 27.1 ? O13 OVL 302 A 1 HETATM 47 O O24 OVL . . . C 3 15.992 8.546 10.082 1 29.53 ? O24 OVL 302 A 1 HETATM 48 O O28 OVL . . . C 3 15.698 11.447 8.303 1 26.5 ? O28 OVL 302 A 1 HETATM 49 O O29 OVL . . . C 3 18.024 10.144 7.912 1 28.17 ? O29 OVL 302 A 1 HETATM 50 O O50 OVL . . . C 3 20.026 7.385 16.441 1 35.73 ? O50 OVL 302 A 1 HETATM 51 O O51 OVL . . . C 3 19.765 9.971 16.442 1 31.44 ? O51 OVL 302 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 352 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 51 #