data_6Z64
#
_model_server_result.job_id            TFTuhowg4XqXy48OcSgRKQ 
_model_server_result.datetime_utc      '2024-11-18 17:37:53' 
_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          6z64 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":302}' 
#
_entry.id    6Z64 
#
_exptl.entry_id    6Z64 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              626.624 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[[3-[6-azanyl-9-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]prop-2-ynyl-(3-azanylpropyl)amino]methyl]oxolane-3,4-diol 
_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            6Z64 
_cell.length_a            62.846 
_cell.length_b            74.17 
_cell.length_c            118.392 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6Z64 
_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 62.846 0 0 
3 'crystal symmetry operation' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 62.846 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           'C26 H34 N12 O7' 
_chem_comp.formula_weight    626.624 
_chem_comp.id                Q9K 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[[3-[6-azanyl-9-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]prop-2-ynyl-(3-azanylpropyl)amino]methyl]oxolane-3,4-diol 
_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
N9 C23 Q9K sing 297 n n 
N8 C22 Q9K sing 298 n y 
N8 C21 Q9K doub 299 n y 
C23 C22 Q9K doub 300 n y 
C23 N10 Q9K sing 301 n y 
C22 C25 Q9K sing 302 n y 
C21 N7 Q9K sing 303 n y 
N10 C24 Q9K doub 304 n y 
C19 O5 Q9K sing 305 n n 
C19 C20 Q9K sing 306 n n 
C19 C18 Q9K sing 307 n n 
C25 N7 Q9K sing 308 n y 
C25 N11 Q9K doub 309 n y 
O6 C20 Q9K sing 310 n n 
N7 C18 Q9K sing 311 n n 
C20 C17 Q9K sing 312 n n 
C24 N11 Q9K sing 313 n y 
C18 O4 Q9K sing 314 n n 
O4 C17 Q9K sing 315 n n 
C17 C16 Q9K sing 316 n n 
C16 N1 Q9K sing 317 n n 
N3 C8 Q9K sing 318 n n 
N1 C2 Q9K sing 319 n n 
N1 C3 Q9K sing 320 n n 
C8 N4 Q9K doub 321 n y 
C8 C7 Q9K sing 322 n y 
N4 C9 Q9K sing 323 n y 
N2 C7 Q9K sing 324 n y 
N2 C6 Q9K doub 325 n y 
C7 C10 Q9K doub 326 n y 
C2 C1 Q9K sing 327 n n 
C3 C4 Q9K sing 328 n n 
C9 N5 Q9K doub 329 n y 
C1 C Q9K sing 330 n n 
C4 C5 Q9K trip 331 n n 
C6 C5 Q9K sing 332 n n 
C6 N6 Q9K sing 333 n y 
O1 C13 Q9K sing 334 n n 
O C12 Q9K sing 335 n n 
O C11 Q9K sing 336 n n 
C10 N5 Q9K sing 337 n y 
C10 N6 Q9K sing 338 n y 
C13 C12 Q9K sing 339 n n 
N6 C11 Q9K sing 340 n n 
C12 C14 Q9K sing 341 n n 
C11 C15 Q9K sing 342 n n 
C N Q9K sing 343 n n 
C15 C14 Q9K sing 344 n n 
C15 O3 Q9K sing 345 n n 
C14 O2 Q9K sing 346 n n 
O3 H1 Q9K sing 347 n n 
C9 H3 Q9K sing 348 n n 
O5 H4 Q9K sing 349 n n 
O6 H5 Q9K sing 350 n n 
C11 H6 Q9K sing 351 n n 
C12 H7 Q9K sing 352 n n 
N3 H8 Q9K sing 353 n n 
N3 H9 Q9K sing 354 n n 
C13 H10 Q9K sing 355 n n 
C13 H11 Q9K sing 356 n n 
C14 H12 Q9K sing 357 n n 
C15 H13 Q9K sing 358 n n 
N H14 Q9K sing 359 n n 
N H15 Q9K sing 360 n n 
C H17 Q9K sing 361 n n 
C H18 Q9K sing 362 n n 
C1 H19 Q9K sing 363 n n 
C1 H20 Q9K sing 364 n n 
C16 H21 Q9K sing 365 n n 
C16 H22 Q9K sing 366 n n 
C17 H23 Q9K sing 367 n n 
C18 H24 Q9K sing 368 n n 
C19 H25 Q9K sing 369 n n 
C2 H26 Q9K sing 370 n n 
C2 H27 Q9K sing 371 n n 
C20 H28 Q9K sing 372 n n 
C21 H29 Q9K sing 373 n n 
C24 H30 Q9K sing 374 n n 
C3 H31 Q9K sing 375 n n 
C3 H32 Q9K sing 376 n n 
N9 H33 Q9K sing 377 n n 
N9 H34 Q9K sing 378 n n 
O1 H35 Q9K sing 379 n n 
O2 H36 Q9K sing 380 n n 
#
_atom_sites.entry_id                     6Z64 
_atom_sites.fract_transf_matrix[1][1]    0.015912 
_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]    0.013483 
_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]    0.008447 
_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 Q9K A 1 302 1 Q9K XXX . 
D 4 HOH A 1 401 16 HOH HOH . 
D 4 HOH A 2 402 60 HOH HOH . 
D 4 HOH A 3 403 37 HOH HOH . 
D 4 HOH A 4 404 7 HOH HOH . 
D 4 HOH A 5 405 5 HOH HOH . 
D 4 HOH A 6 406 31 HOH HOH . 
D 4 HOH A 7 407 3 HOH HOH . 
D 4 HOH A 8 408 48 HOH HOH . 
D 4 HOH A 9 409 20 HOH HOH . 
D 4 HOH A 10 410 56 HOH HOH . 
D 4 HOH A 11 411 28 HOH HOH . 
D 4 HOH A 12 412 8 HOH HOH . 
D 4 HOH A 13 413 35 HOH HOH . 
D 4 HOH A 14 414 71 HOH HOH . 
D 4 HOH A 15 415 22 HOH HOH . 
D 4 HOH A 16 416 9 HOH HOH . 
D 4 HOH A 17 417 1 HOH HOH . 
D 4 HOH A 18 418 13 HOH HOH . 
D 4 HOH A 19 419 62 HOH HOH . 
D 4 HOH A 20 420 15 HOH HOH . 
D 4 HOH A 21 421 19 HOH HOH . 
D 4 HOH A 22 422 30 HOH HOH . 
D 4 HOH A 23 423 44 HOH HOH . 
D 4 HOH A 24 424 17 HOH HOH . 
D 4 HOH A 25 425 24 HOH HOH . 
D 4 HOH A 26 426 11 HOH HOH . 
D 4 HOH A 27 427 10 HOH HOH . 
D 4 HOH A 28 428 18 HOH HOH . 
D 4 HOH A 29 429 63 HOH HOH . 
D 4 HOH A 30 430 66 HOH HOH . 
D 4 HOH A 31 431 2 HOH HOH . 
D 4 HOH A 32 432 4 HOH HOH . 
D 4 HOH A 33 433 38 HOH HOH . 
D 4 HOH A 34 434 21 HOH HOH . 
D 4 HOH A 35 435 34 HOH HOH . 
D 4 HOH A 36 436 33 HOH HOH . 
D 4 HOH A 37 437 29 HOH HOH . 
D 4 HOH A 38 438 32 HOH HOH . 
D 4 HOH A 39 439 14 HOH HOH . 
D 4 HOH A 40 440 46 HOH HOH . 
D 4 HOH A 41 441 6 HOH HOH . 
D 4 HOH A 42 442 12 HOH HOH . 
D 4 HOH A 43 443 65 HOH HOH . 
D 4 HOH A 44 444 25 HOH HOH . 
D 4 HOH A 45 445 40 HOH HOH . 
D 4 HOH A 46 446 27 HOH HOH . 
D 4 HOH A 47 447 53 HOH HOH . 
D 4 HOH A 48 448 47 HOH HOH . 
D 4 HOH A 49 449 36 HOH HOH . 
D 4 HOH A 50 450 26 HOH HOH . 
D 4 HOH A 51 451 45 HOH HOH . 
D 4 HOH A 52 452 54 HOH HOH . 
D 4 HOH A 53 453 58 HOH HOH . 
D 4 HOH A 54 454 68 HOH HOH . 
D 4 HOH A 55 455 55 HOH HOH . 
D 4 HOH A 56 456 50 HOH HOH . 
D 4 HOH A 57 457 64 HOH HOH . 
D 4 HOH A 58 458 39 HOH HOH . 
D 4 HOH A 59 459 67 HOH HOH . 
D 4 HOH A 60 460 23 HOH HOH . 
D 4 HOH A 61 461 69 HOH HOH . 
D 4 HOH A 62 462 70 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 Q9K . . . C 3 19.046 9.625 16.164 1 49.18 ? O3 Q9K 302 A 1 
HETATM 2 C C4 Q9K . . . C 3 15.858 10.875 12.837 1 40.66 ? C4 Q9K 302 A 1 
HETATM 3 C C5 Q9K . . . C 3 17.044 10.988 12.888 1 37.17 ? C5 Q9K 302 A 1 
HETATM 4 O O4 Q9K . . . C 3 15.703 8.402 9.812 1 41.55 ? O4 Q9K 302 A 1 
HETATM 5 C C6 Q9K . . . C 3 18.416 11.331 12.86 1 34.14 ? C6 Q9K 302 A 1 
HETATM 6 N N1 Q9K . . . C 3 13.781 9.852 11.906 1 51.28 ? N1 Q9K 302 A 1 
HETATM 7 C C7 Q9K . . . C 3 20.264 12.286 12.412 1 32.73 ? C7 Q9K 302 A 1 
HETATM 8 C C8 Q9K . . . C 3 21.322 13.079 11.938 1 33.1 ? C8 Q9K 302 A 1 
HETATM 9 N N2 Q9K . . . C 3 18.883 12.449 12.353 1 34.62 ? N2 Q9K 302 A 1 
HETATM 10 C C9 Q9K . . . C 3 22.755 11.45 12.741 1 36.27 ? C9 Q9K 302 A 1 
HETATM 11 O O5 Q9K . . . C 3 17.839 10.295 7.953 1 41.17 ? O5 Q9K 302 A 1 
HETATM 12 C C10 Q9K . . . C 3 20.595 11.085 12.998 1 34 ? C10 Q9K 302 A 1 
HETATM 13 O O6 Q9K . . . C 3 15.503 11.64 8.322 1 35.6 ? O6 Q9K 302 A 1 
HETATM 14 C C11 Q9K . . . C 3 19.282 9.135 13.868 1 45.55 ? C11 Q9K 302 A 1 
HETATM 15 C C12 Q9K . . . C 3 18.482 7.015 13.714 1 54.32 ? C12 Q9K 302 A 1 
HETATM 16 N N3 Q9K . . . C 3 21.15 14.198 11.222 1 34.79 ? N3 Q9K 302 A 1 
HETATM 17 C C13 Q9K . . . C 3 17.275 6.333 13.133 1 58.41 ? C13 Q9K 302 A 1 
HETATM 18 C C14 Q9K . . . C 3 18.348 7.473 15.182 1 50.28 ? C14 Q9K 302 A 1 
HETATM 19 C C15 Q9K . . . C 3 18.381 8.998 15.08 1 48.49 ? C15 Q9K 302 A 1 
HETATM 20 N N4 Q9K . . . C 3 22.579 12.628 12.131 1 35.11 ? N4 Q9K 302 A 1 
HETATM 21 N N Q9K . . . C 3 12.543 6.971 15.058 0.7 64.18 ? N Q9K 302 A 1 
HETATM 22 C C Q9K . . . C 3 11.974 8.11 14.314 0.7 62.92 ? C Q9K 302 A 1 
HETATM 23 O O Q9K . . . C 3 18.776 8.2 12.939 1 50.38 ? O Q9K 302 A 1 
HETATM 24 C C1 Q9K . . . C 3 12.294 8.086 12.827 1 60.05 ? C1 Q9K 302 A 1 
HETATM 25 C C16 Q9K . . . C 3 13.869 9.864 10.436 1 42.37 ? C16 Q9K 302 A 1 
HETATM 26 C C17 Q9K . . . C 3 15.262 9.772 9.838 1 41.49 ? C17 Q9K 302 A 1 
HETATM 27 C C18 Q9K . . . C 3 16.809 8.325 8.932 1 41.7 ? C18 Q9K 302 A 1 
HETATM 28 C C19 Q9K . . . C 3 16.672 9.481 7.92 1 38.63 ? C19 Q9K 302 A 1 
HETATM 29 C C2 Q9K . . . C 3 13.711 8.5 12.469 1 56.68 ? C2 Q9K 302 A 1 
HETATM 30 C C20 Q9K . . . C 3 15.407 10.223 8.39 1 37.27 ? C20 Q9K 302 A 1 
HETATM 31 C C21 Q9K . . . C 3 15.793 6.379 7.667 1 40.19 ? C21 Q9K 302 A 1 
HETATM 32 C C22 Q9K . . . C 3 17.426 5.035 7.547 1 39.99 ? C22 Q9K 302 A 1 
HETATM 33 C C23 Q9K . . . C 3 18.371 4.022 7.269 1 37.82 ? C23 Q9K 302 A 1 
HETATM 34 C C24 Q9K . . . C 3 19.919 5.307 8.406 1 39.07 ? C24 Q9K 302 A 1 
HETATM 35 C C25 Q9K . . . C 3 17.886 6.126 8.268 1 39.89 ? C25 Q9K 302 A 1 
HETATM 36 C C3 Q9K . . . C 3 14.389 10.892 12.74 1 47.08 ? C3 Q9K 302 A 1 
HETATM 37 N N10 Q9K . . . C 3 19.63 4.199 7.719 1 36.26 ? N10 Q9K 302 A 1 
HETATM 38 N N11 Q9K . . . C 3 19.116 6.32 8.741 1 40.56 ? N11 Q9K 302 A 1 
HETATM 39 N N5 Q9K . . . C 3 21.83 10.605 13.207 1 35.56 ? N5 Q9K 302 A 1 
HETATM 40 N N6 Q9K . . . C 3 19.401 10.452 13.291 1 36.04 ? N6 Q9K 302 A 1 
HETATM 41 N N7 Q9K . . . C 3 16.819 6.996 8.328 1 39.42 ? N7 Q9K 302 A 1 
HETATM 42 N N8 Q9K . . . C 3 16.104 5.197 7.181 1 41.24 ? N8 Q9K 302 A 1 
HETATM 43 N N9 Q9K . . . C 3 18.09 2.912 6.565 1 39.45 ? N9 Q9K 302 A 1 
HETATM 44 O O1 Q9K . . . C 3 16.25 7.274 12.906 1 59.35 ? O1 Q9K 302 A 1 
HETATM 45 O O2 Q9K . . . C 3 19.497 7.038 15.883 1 50.61 ? O2 Q9K 302 A 1 
#
_model_server_stats.io_time_ms              83 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           328 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           45 
#