data_8P45
#
_model_server_result.job_id            2rM0UnlSDLfJX4Cy1IID0Q 
_model_server_result.datetime_utc      '2024-10-19 03:35:02' 
_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          8p45 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":401}' 
#
_entry.id    8P45 
#
_exptl.entry_id    8P45 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              693.537 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            9-[(1~{S},3~{R},6~{R},8~{R},9~{R},10~{R},12~{R},15~{R},17~{R},18~{R})-8-(6-aminopurin-9-yl)-9,18-bis(fluoranyl)-3,12-bis(oxidanylidene)-3,12-bis(sulfanyl)-2,4,7,11,13-pentaoxa-3$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{6,10}]octadecan-17-yl]-1~{H}-purin-6-one 
_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          97.58 
_cell.angle_gamma         90 
_cell.entry_id            8P45 
_cell.length_a            89.49 
_cell.length_b            77.98 
_cell.length_c            35.42 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8P45 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    'C 2y' 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
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 89.49 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C21 H23 F2 N9 O8 P2 S2' 
_chem_comp.formula_weight    693.537 
_chem_comp.id                WY8 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              9-[(1~{S},3~{R},6~{R},8~{R},9~{R},10~{R},12~{R},15~{R},17~{R},18~{R})-8-(6-aminopurin-9-yl)-9,18-bis(fluoranyl)-3,12-bis(oxidanylidene)-3,12-bis(sulfanyl)-2,4,7,11,13-pentaoxa-3$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{6,10}]octadecan-17-yl]-1~{H}-purin-6-one 
_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
N37 C36 WY8 sing 374 n n 
N37 C38 WY8 sing 375 n n 
C36 N35 WY8 doub 376 n n 
O39 C38 WY8 doub 377 n n 
C38 C33 WY8 sing 378 n n 
N35 C34 WY8 sing 379 n n 
C33 C34 WY8 doub 380 n y 
C33 N32 WY8 sing 381 n y 
C34 N30 WY8 sing 382 n y 
N32 C31 WY8 doub 383 n y 
N30 C31 WY8 sing 384 n y 
N30 C29 WY8 sing 385 n n 
C29 C28 WY8 sing 386 n n 
C29 C40 WY8 sing 387 n n 
C28 C3 WY8 sing 388 n n 
F1 C1 WY8 sing 389 n n 
O41 C40 WY8 sing 390 n n 
O41 P42 WY8 sing 391 n n 
C40 C1 WY8 sing 392 n n 
N6 C6 WY8 sing 393 n n 
C3 C1 WY8 sing 394 n n 
C3 C7 WY8 sing 395 n n 
O44 P42 WY8 doub 396 n n 
P42 S43 WY8 sing 397 n n 
P42 O11 WY8 sing 398 n n 
N7 C5 WY8 sing 399 n y 
N7 C8 WY8 doub 400 n y 
C6 C5 WY8 doub 401 n y 
C6 N1 WY8 sing 402 n y 
C7 O5 WY8 sing 403 n n 
C5 C4 WY8 sing 404 n y 
C8 N9 WY8 sing 405 n y 
O11 C10 WY8 sing 406 n n 
N1 C2 WY8 doub 407 n y 
O5 P6 WY8 sing 408 n n 
C4 N9 WY8 sing 409 n y 
C4 N3 WY8 doub 410 n y 
O27 P6 WY8 doub 411 n n 
N9 C13 WY8 sing 412 n n 
C2 N3 WY8 sing 413 n y 
C10 C9 WY8 sing 414 n n 
P6 O7 WY8 sing 415 n n 
P6 S26 WY8 sing 416 n n 
C11 C9 WY8 sing 417 n n 
C11 C24 WY8 sing 418 n n 
C11 O7 WY8 sing 419 n n 
C9 O12 WY8 sing 420 n n 
C13 O12 WY8 sing 421 n n 
C13 C24 WY8 sing 422 n n 
C24 F25 WY8 sing 423 n n 
C10 H1 WY8 sing 424 n n 
C10 H4 WY8 sing 425 n n 
C13 H3 WY8 sing 426 n n 
C8 H8 WY8 sing 427 n n 
C1 H5 WY8 sing 428 n n 
C2 H2 WY8 sing 429 n n 
C24 H7 WY8 sing 430 n n 
C28 H6 WY8 sing 431 n n 
C28 H9 WY8 sing 432 n n 
C29 H10 WY8 sing 433 n n 
C3 H11 WY8 sing 434 n n 
C31 H12 WY8 sing 435 n n 
C36 H13 WY8 sing 436 n n 
C7 H14 WY8 sing 437 n n 
C7 H15 WY8 sing 438 n n 
C40 H16 WY8 sing 439 n n 
C11 H17 WY8 sing 440 n n 
C9 H18 WY8 sing 441 n n 
N6 HN61 WY8 sing 442 n n 
N6 HN62 WY8 sing 443 n n 
N37 H21 WY8 sing 444 n n 
S26 H22 WY8 sing 445 n n 
S43 H23 WY8 sing 446 n n 
#
_atom_sites.entry_id                     8P45 
_atom_sites.fract_transf_matrix[1][1]    0.011174 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001487 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012824 
_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]    0.028482 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
_pdbx_nonpoly_scheme.asym_id          B 
_pdbx_nonpoly_scheme.entity_id        2 
_pdbx_nonpoly_scheme.mon_id           WY8 
_pdbx_nonpoly_scheme.pdb_strand_id    A 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      401 
_pdbx_nonpoly_scheme.auth_seq_num     401 
_pdbx_nonpoly_scheme.pdb_mon_id       WY8 
_pdbx_nonpoly_scheme.auth_mon_id      202 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
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 C10 WY8 . . . B 2 44.074 25.308 2.156 0.5 63.22 ? C10 WY8 401 A 1 
HETATM 2 C C13 WY8 . . . B 2 41.286 27.435 1.331 0.5 62.61 ? C13 WY8 401 A 1 
HETATM 3 C C8 WY8 . . . B 2 42.875 29.263 2.086 0.5 64.1 ? C8 WY8 401 A 1 
HETATM 4 C C5 WY8 . . . B 2 41.947 30.993 1.279 0.5 63.78 ? C5 WY8 401 A 1 
HETATM 5 C C4 WY8 . . . B 2 41.129 29.927 0.95 0.5 63.27 ? C4 WY8 401 A 1 
HETATM 6 C C1 WY8 . . . B 2 46.826 25.645 -0.054 0.5 68.15 ? C1 WY8 401 A 1 
HETATM 7 C C2 WY8 . . . B 2 39.687 31.244 -0.09 0.5 65.47 ? C2 WY8 401 A 1 
HETATM 8 C C6 WY8 . . . B 2 41.529 32.263 0.848 0.5 67.48 ? C6 WY8 401 A 1 
HETATM 9 C C24 WY8 . . . B 2 41.517 26.871 -0.068 0.5 64.86 ? C24 WY8 401 A 1 
HETATM 10 C C28 WY8 . . . B 2 48.133 26.842 -1.538 0.5 64.23 ? C28 WY8 401 A 1 
HETATM 11 C C29 WY8 . . . B 2 47.946 27.74 -0.313 0.5 64.11 ? C29 WY8 401 A 1 
HETATM 12 C C3 WY8 . . . B 2 46.935 25.884 -1.565 0.5 64.47 ? C3 WY8 401 A 1 
HETATM 13 C C31 WY8 . . . B 2 46.732 29.667 -1.488 0.5 63.17 ? C31 WY8 401 A 1 
HETATM 14 C C33 WY8 . . . B 2 47.726 31.359 -0.654 0.5 64.42 ? C33 WY8 401 A 1 
HETATM 15 C C34 WY8 . . . B 2 48.335 30.246 -0.109 0.5 65.16 ? C34 WY8 401 A 1 
HETATM 16 C C36 WY8 . . . B 2 49.736 31.419 1.133 0.5 69.44 ? C36 WY8 401 A 1 
HETATM 17 C C38 WY8 . . . B 2 48.18 32.664 -0.248 0.5 69.02 ? C38 WY8 401 A 1 
HETATM 18 C C7 WY8 . . . B 2 45.71 26.479 -2.219 0.5 65.7 ? C7 WY8 401 A 1 
HETATM 19 C C40 WY8 . . . B 2 46.814 27.074 0.468 0.5 65.15 ? C40 WY8 401 A 1 
HETATM 20 C C11 WY8 . . . B 2 42.887 26.226 0.073 0.5 64.73 ? C11 WY8 401 A 1 
HETATM 21 C C9 WY8 . . . B 2 42.772 25.615 1.463 0.5 66.18 ? C9 WY8 401 A 1 
HETATM 22 F F1 WY8 . . . B 2 47.899 24.954 0.524 0.5 71.79 ? F1 WY8 401 A 1 
HETATM 23 F F25 WY8 . . . B 2 40.559 25.878 -0.305 0.5 65.49 ? F25 WY8 401 A 1 
HETATM 24 N N9 WY8 . . . B 2 41.734 28.811 1.473 0.5 63.13 ? N9 WY8 401 A 1 
HETATM 25 N N7 WY8 . . . B 2 43.051 30.558 1.999 0.5 62.44 ? N7 WY8 401 A 1 
HETATM 26 N N3 WY8 . . . B 2 39.979 29.986 0.265 0.5 62.1 ? N3 WY8 401 A 1 
HETATM 27 N N1 WY8 . . . B 2 40.376 32.365 0.154 0.5 68.54 ? N1 WY8 401 A 1 
HETATM 28 N N6 WY8 . . . B 2 42.257 33.35 1.12 0.5 70.02 ? N6 WY8 401 A 1 
HETATM 29 N N30 WY8 . . . B 2 47.689 29.159 -0.649 0.5 64.7 ? N30 WY8 401 A 1 
HETATM 30 N N32 WY8 . . . B 2 46.717 30.98 -1.523 0.5 62.51 ? N32 WY8 401 A 1 
HETATM 31 N N35 WY8 . . . B 2 49.348 30.221 0.787 0.5 67.71 ? N35 WY8 401 A 1 
HETATM 32 N N37 WY8 . . . B 2 49.213 32.577 0.668 0.5 70.13 ? N37 WY8 401 A 1 
HETATM 33 O O11 WY8 . . . B 2 44.855 26.518 2.274 0.5 63.57 ? O11 WY8 401 A 1 
HETATM 34 O O12 WY8 . . . B 2 42.037 26.613 2.212 0.5 64.85 ? O12 WY8 401 A 1 
HETATM 35 O O27 WY8 . . . B 2 42.855 27.101 -2.656 0.5 64.44 ? O27 WY8 401 A 1 
HETATM 36 O O39 WY8 . . . B 2 47.745 33.758 -0.609 0.5 70.79 ? O39 WY8 401 A 1 
HETATM 37 O O41 WY8 . . . B 2 47.187 27.082 1.861 0.5 64.1 ? O41 WY8 401 A 1 
HETATM 38 O O44 WY8 . . . B 2 46.347 27.36 4.195 0.5 70.36 ? O44 WY8 401 A 1 
HETATM 39 O O5 WY8 . . . B 2 44.802 25.451 -2.661 0.5 62.39 ? O5 WY8 401 A 1 
HETATM 40 O O7 WY8 . . . B 2 43.069 25.231 -0.953 0.5 68.29 ? O7 WY8 401 A 1 
HETATM 41 P P42 WY8 . . . B 2 46.258 26.482 2.965 0.5 64.75 ? P42 WY8 401 A 1 
HETATM 42 P P6 WY8 . . . B 2 43.268 25.658 -2.444 0.5 61.24 ? P6 WY8 401 A 1 
HETATM 43 S S26 WY8 . . . B 2 42.167 24.355 -3.686 0.5 69.62 ? S26 WY8 401 A 1 
HETATM 44 S S43 WY8 . . . B 2 46.772 24.489 3.437 0.5 66.43 ? S43 WY8 401 A 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           44 
#