data_6Z65
#
_model_server_result.job_id            p8bgOzeuFuFw6eMwr-Qudg 
_model_server_result.datetime_utc      '2024-11-18 17:51:35' 
_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          6z65 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":302}' 
#
_entry.id    6Z65 
#
_exptl.entry_id    6Z65 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              654.634 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ~{N}-[[(2~{R},3~{S},4~{R},5~{R})-5-[8-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy]prop-1-ynyl]-6-azanyl-purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-4-azanyl-butanamide 
_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            6Z65 
_cell.length_a            63.019 
_cell.length_b            74.531 
_cell.length_c            118.739 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6Z65 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 2 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D 1 1 
A,B,C,D 1 2 
A,B,C,D 1 3 
A,B,C,D 1 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 63.019 0 0 
3 'crystal symmetry operation' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 63.019 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           'C27 H34 N12 O8' 
_chem_comp.formula_weight    654.634 
_chem_comp.id                Q9N 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              ~{N}-[[(2~{R},3~{S},4~{R},5~{R})-5-[8-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy]prop-1-ynyl]-6-azanyl-purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-4-azanyl-butanamide 
_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
N11 C26 Q9N sing 297 n n 
N8 C23 Q9N sing 298 n y 
N8 C22 Q9N doub 299 n y 
C26 C23 Q9N doub 300 n y 
C26 N10 Q9N sing 301 n y 
C23 C24 Q9N sing 302 n y 
C22 N7 Q9N sing 303 n y 
O6 C20 Q9N sing 304 n n 
C20 C21 Q9N sing 305 n n 
C20 C19 Q9N sing 306 n n 
N10 C25 Q9N doub 307 n y 
O7 C21 Q9N sing 308 n n 
C24 N7 Q9N sing 309 n y 
C24 N9 Q9N doub 310 n y 
N7 C19 Q9N sing 311 n n 
C21 C18 Q9N sing 312 n n 
C25 N9 Q9N sing 313 n y 
C19 O5 Q9N sing 314 n n 
O5 C18 Q9N sing 315 n n 
C18 C17 Q9N sing 316 n n 
C17 O4 Q9N sing 317 n n 
N6 C13 Q9N sing 318 n n 
C13 N5 Q9N doub 319 n y 
C13 C10 Q9N sing 320 n y 
O4 C16 Q9N sing 321 n n 
N5 C12 Q9N sing 322 n y 
N3 C10 Q9N sing 323 n y 
N3 C9 Q9N doub 324 n y 
C10 C11 Q9N doub 325 n y 
O C3 Q9N doub 326 n n 
C12 N4 Q9N doub 327 n y 
C16 C15 Q9N sing 328 n n 
C9 C14 Q9N sing 329 n n 
C9 N2 Q9N sing 330 n y 
C15 C14 Q9N trip 331 n n 
C11 N4 Q9N sing 332 n y 
C11 N2 Q9N sing 333 n y 
O1 C5 Q9N sing 334 n n 
O1 C6 Q9N sing 335 n n 
C3 N1 Q9N sing 336 n n 
C3 C2 Q9N sing 337 n n 
C4 N1 Q9N sing 338 n n 
C4 C5 Q9N sing 339 n n 
N2 C6 Q9N sing 340 n n 
C2 C1 Q9N sing 341 n n 
C5 C8 Q9N sing 342 n n 
C6 C7 Q9N sing 343 n n 
C7 C8 Q9N sing 344 n n 
C7 O2 Q9N sing 345 n n 
C1 C Q9N sing 346 n n 
C8 O3 Q9N sing 347 n n 
C N Q9N sing 348 n n 
O3 H1 Q9N sing 349 n n 
C4 H2 Q9N sing 350 n n 
C4 H3 Q9N sing 351 n n 
C5 H4 Q9N sing 352 n n 
C6 H5 Q9N sing 353 n n 
N1 H6 Q9N sing 354 n n 
C7 H7 Q9N sing 355 n n 
C8 H8 Q9N sing 356 n n 
O6 H9 Q9N sing 357 n n 
C12 H10 Q9N sing 358 n n 
O7 H11 Q9N sing 359 n n 
N H12 Q9N sing 360 n n 
N H13 Q9N sing 361 n n 
C H15 Q9N sing 362 n n 
C H16 Q9N sing 363 n n 
C1 H17 Q9N sing 364 n n 
C1 H18 Q9N sing 365 n n 
C16 H19 Q9N sing 366 n n 
C16 H20 Q9N sing 367 n n 
C17 H21 Q9N sing 368 n n 
C17 H22 Q9N sing 369 n n 
C18 H23 Q9N sing 370 n n 
C19 H24 Q9N sing 371 n n 
C2 H25 Q9N sing 372 n n 
C2 H26 Q9N sing 373 n n 
C20 H27 Q9N sing 374 n n 
C21 H28 Q9N sing 375 n n 
C22 H29 Q9N sing 376 n n 
C25 H30 Q9N sing 377 n n 
N11 H31 Q9N sing 378 n n 
N11 H32 Q9N sing 379 n n 
N6 H33 Q9N sing 380 n n 
N6 H34 Q9N sing 381 n n 
O2 H35 Q9N sing 382 n n 
#
_atom_sites.entry_id                     6Z65 
_atom_sites.fract_transf_matrix[1][1]    0.015868 
_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]    0.013417 
_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]    0.008422 
_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 1 CIT CIT . 
C 3 Q9N A 1 302 1 Q9N XXX . 
D 4 HOH A 1 401 13 HOH HOH . 
D 4 HOH A 2 402 4 HOH HOH . 
D 4 HOH A 3 403 51 HOH HOH . 
D 4 HOH A 4 404 54 HOH HOH . 
D 4 HOH A 5 405 70 HOH HOH . 
D 4 HOH A 6 406 49 HOH HOH . 
D 4 HOH A 7 407 15 HOH HOH . 
D 4 HOH A 8 408 12 HOH HOH . 
D 4 HOH A 9 409 77 HOH HOH . 
D 4 HOH A 10 410 5 HOH HOH . 
D 4 HOH A 11 411 27 HOH HOH . 
D 4 HOH A 12 412 50 HOH HOH . 
D 4 HOH A 13 413 19 HOH HOH . 
D 4 HOH A 14 414 67 HOH HOH . 
D 4 HOH A 15 415 61 HOH HOH . 
D 4 HOH A 16 416 24 HOH HOH . 
D 4 HOH A 17 417 6 HOH HOH . 
D 4 HOH A 18 418 65 HOH HOH . 
D 4 HOH A 19 419 31 HOH HOH . 
D 4 HOH A 20 420 72 HOH HOH . 
D 4 HOH A 21 421 23 HOH HOH . 
D 4 HOH A 22 422 2 HOH HOH . 
D 4 HOH A 23 423 37 HOH HOH . 
D 4 HOH A 24 424 32 HOH HOH . 
D 4 HOH A 25 425 39 HOH HOH . 
D 4 HOH A 26 426 11 HOH HOH . 
D 4 HOH A 27 427 55 HOH HOH . 
D 4 HOH A 28 428 46 HOH HOH . 
D 4 HOH A 29 429 10 HOH HOH . 
D 4 HOH A 30 430 29 HOH HOH . 
D 4 HOH A 31 431 78 HOH HOH . 
D 4 HOH A 32 432 28 HOH HOH . 
D 4 HOH A 33 433 25 HOH HOH . 
D 4 HOH A 34 434 1 HOH HOH . 
D 4 HOH A 35 435 40 HOH HOH . 
D 4 HOH A 36 436 59 HOH HOH . 
D 4 HOH A 37 437 20 HOH HOH . 
D 4 HOH A 38 438 3 HOH HOH . 
D 4 HOH A 39 439 36 HOH HOH . 
D 4 HOH A 40 440 9 HOH HOH . 
D 4 HOH A 41 441 34 HOH HOH . 
D 4 HOH A 42 442 21 HOH HOH . 
D 4 HOH A 43 443 48 HOH HOH . 
D 4 HOH A 44 444 42 HOH HOH . 
D 4 HOH A 45 445 8 HOH HOH . 
D 4 HOH A 46 446 79 HOH HOH . 
D 4 HOH A 47 447 7 HOH HOH . 
D 4 HOH A 48 448 17 HOH HOH . 
D 4 HOH A 49 449 22 HOH HOH . 
D 4 HOH A 50 450 14 HOH HOH . 
D 4 HOH A 51 451 41 HOH HOH . 
D 4 HOH A 52 452 53 HOH HOH . 
D 4 HOH A 53 453 16 HOH HOH . 
D 4 HOH A 54 454 71 HOH HOH . 
D 4 HOH A 55 455 52 HOH HOH . 
D 4 HOH A 56 456 33 HOH HOH . 
D 4 HOH A 57 457 18 HOH HOH . 
D 4 HOH A 58 458 38 HOH HOH . 
D 4 HOH A 59 459 69 HOH HOH . 
D 4 HOH A 60 460 62 HOH HOH . 
D 4 HOH A 61 461 75 HOH HOH . 
D 4 HOH A 62 462 63 HOH HOH . 
D 4 HOH A 63 463 68 HOH HOH . 
D 4 HOH A 64 464 66 HOH HOH . 
D 4 HOH A 65 465 76 HOH HOH . 
D 4 HOH A 66 466 44 HOH HOH . 
D 4 HOH A 67 467 43 HOH HOH . 
D 4 HOH A 68 468 56 HOH HOH . 
D 4 HOH A 69 469 58 HOH HOH . 
D 4 HOH A 70 470 26 HOH HOH . 
D 4 HOH A 71 471 30 HOH HOH . 
D 4 HOH A 72 472 74 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 O3 Q9N . . . C 3 19.108 7.131 16.013 1 45.58 ? O3 Q9N 302 A 1 
HETATM 2 C C4 Q9N . . . C 3 16.521 7.393 13.341 1 57.3 ? C4 Q9N 302 A 1 
HETATM 3 C C5 Q9N . . . C 3 17.928 7.428 13.908 1 45.92 ? C5 Q9N 302 A 1 
HETATM 4 O O4 Q9N . . . C 3 14.203 9.465 11.965 1 40.34 ? O4 Q9N 302 A 1 
HETATM 5 C C6 Q9N . . . C 3 19.292 9.317 14.05 1 35.93 ? C6 Q9N 302 A 1 
HETATM 6 N N1 Q9N . . . C 3 15.735 6.273 13.839 1 68.75 ? N1 Q9N 302 A 1 
HETATM 7 C C7 Q9N . . . C 3 18.383 9.328 15.277 1 40.77 ? C7 Q9N 302 A 1 
HETATM 8 C C8 Q9N . . . C 3 18.05 7.84 15.377 1 43.75 ? C8 Q9N 302 A 1 
HETATM 9 N N2 Q9N . . . C 3 19.449 10.587 13.358 1 31.45 ? N2 Q9N 302 A 1 
HETATM 10 C C9 Q9N . . . C 3 18.462 11.422 12.858 1 30.17 ? C9 Q9N 302 A 1 
HETATM 11 O O5 Q9N . . . C 3 15.866 8.391 9.869 1 32.6 ? O5 Q9N 302 A 1 
HETATM 12 C C10 Q9N . . . C 3 20.318 12.349 12.355 1 29.24 ? C10 Q9N 302 A 1 
HETATM 13 O O6 Q9N . . . C 3 17.799 10.342 7.841 1 31.41 ? O6 Q9N 302 A 1 
HETATM 14 C C11 Q9N . . . C 3 20.65 11.183 13.029 1 27.28 ? C11 Q9N 302 A 1 
HETATM 15 C C12 Q9N . . . C 3 22.806 11.537 12.756 1 26.78 ? C12 Q9N 302 A 1 
HETATM 16 N N3 Q9N . . . C 3 18.939 12.499 12.259 1 28.17 ? N3 Q9N 302 A 1 
HETATM 17 C C13 Q9N . . . C 3 21.385 13.128 11.866 1 26.67 ? C13 Q9N 302 A 1 
HETATM 18 O O7 Q9N . . . C 3 15.529 11.586 8.309 1 32.08 ? O7 Q9N 302 A 1 
HETATM 19 C C14 Q9N . . . C 3 17.079 11.087 12.927 1 31.25 ? C14 Q9N 302 A 1 
HETATM 20 C C15 Q9N . . . C 3 15.907 10.861 12.912 1 36.1 ? C15 Q9N 302 A 1 
HETATM 21 N N4 Q9N . . . C 3 21.881 10.722 13.267 1 24.65 ? N4 Q9N 302 A 1 
HETATM 22 N N Q9N . . . C 3 15.04 4.139 17.713 1 87.01 ? N Q9N 302 A 1 
HETATM 23 C C Q9N . . . C 3 14.648 4.534 16.357 1 85.04 ? C Q9N 302 A 1 
HETATM 24 O O Q9N . . . C 3 16.576 4.762 12.405 1 79.22 ? O Q9N 302 A 1 
HETATM 25 C C1 Q9N . . . C 3 15.195 3.597 15.296 1 82.55 ? C1 Q9N 302 A 1 
HETATM 26 C C16 Q9N . . . C 3 14.476 10.579 12.809 1 38.47 ? C16 Q9N 302 A 1 
HETATM 27 C C17 Q9N . . . C 3 14.07 9.846 10.596 1 34.97 ? C17 Q9N 302 A 1 
HETATM 28 C C18 Q9N . . . C 3 15.407 9.754 9.902 1 32.21 ? C18 Q9N 302 A 1 
HETATM 29 C C19 Q9N . . . C 3 16.925 8.34 8.931 1 33.22 ? C19 Q9N 302 A 1 
HETATM 30 C C2 Q9N . . . C 3 14.844 4.031 13.879 1 80.16 ? C2 Q9N 302 A 1 
HETATM 31 C C20 Q9N . . . C 3 16.683 9.461 7.901 1 29.6 ? C20 Q9N 302 A 1 
HETATM 32 C C21 Q9N . . . C 3 15.429 10.172 8.438 1 32.08 ? C21 Q9N 302 A 1 
HETATM 33 C C22 Q9N . . . C 3 15.997 6.344 7.661 1 35.37 ? C22 Q9N 302 A 1 
HETATM 34 C C23 Q9N . . . C 3 17.68 5.049 7.611 1 35.36 ? C23 Q9N 302 A 1 
HETATM 35 C C24 Q9N . . . C 3 18.071 6.167 8.33 1 34.39 ? C24 Q9N 302 A 1 
HETATM 36 C C25 Q9N . . . C 3 20.093 5.355 8.656 1 31.52 ? C25 Q9N 302 A 1 
HETATM 37 C C26 Q9N . . . C 3 18.639 4.035 7.436 1 31.94 ? C26 Q9N 302 A 1 
HETATM 38 C C3 Q9N . . . C 3 15.799 5.053 13.31 1 75.44 ? C3 Q9N 302 A 1 
HETATM 39 N N10 Q9N . . . C 3 19.859 4.225 7.984 1 30.06 ? N10 Q9N 302 A 1 
HETATM 40 N N11 Q9N . . . C 3 18.414 2.907 6.755 1 32.07 ? N11 Q9N 302 A 1 
HETATM 41 N N5 Q9N . . . C 3 22.64 12.681 12.088 1 27.01 ? N5 Q9N 302 A 1 
HETATM 42 N N6 Q9N . . . C 3 21.225 14.264 11.18 1 27.07 ? N6 Q9N 302 A 1 
HETATM 43 N N7 Q9N . . . C 3 16.982 7.002 8.351 1 34.17 ? N7 Q9N 302 A 1 
HETATM 44 N N8 Q9N . . . C 3 16.361 5.174 7.194 1 34.77 ? N8 Q9N 302 A 1 
HETATM 45 N N9 Q9N . . . C 3 19.27 6.381 8.882 1 31.36 ? N9 Q9N 302 A 1 
HETATM 46 O O1 Q9N . . . C 3 18.733 8.369 13.161 1 37.78 ? O1 Q9N 302 A 1 
HETATM 47 O O2 Q9N . . . C 3 19.076 9.798 16.428 1 43.44 ? O2 Q9N 302 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           305 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           47 
#