data_8FJ4
#
_model_server_result.job_id            A4VORBQcAhShtKJMh8XkNg 
_model_server_result.datetime_utc      '2025-07-15 00:36:20' 
_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          8fj4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":1404}' 
#
_entry.id    8FJ4 
#
_exptl.entry_id    8FJ4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              1038.846 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl (2R,3S,4S)-2,3,4-trihydroxy-5-[(1R,3R,3aS,13R)-1-hydroxy-10,11-dimethyl-4,6-dioxo-3-[3-(phenylcarbamoyl)phenyl]-2,3,5,6-tetrahydro-1H-benzo[g]pyrrolo[2,1-e]pteridin-8(4H)-yl]pentyl dihydrogen diphosphate' 
_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            8FJ4 
_cell.length_a            118.346 
_cell.length_b            179.743 
_cell.length_c            232.329 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8FJ4 
_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        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,C,D,E,F 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1 
#
_pdbx_struct_oper_list.id                    1 
_pdbx_struct_oper_list.type                  'identity operation' 
_pdbx_struct_oper_list.name                  1_555 
_pdbx_struct_oper_list.symmetry_operation    x,y,z 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             F 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C43 H48 N10 O17 P2' 
_chem_comp.formula_weight    1038.846 
_chem_comp.id                XZQ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl (2R,3S,4S)-2,3,4-trihydroxy-5-[(1R,3R,3aS,13R)-1-hydroxy-10,11-dimethyl-4,6-dioxo-3-[3-(phenylcarbamoyl)phenyl]-2,3,5,6-tetrahydro-1H-benzo[g]pyrrolo[2,1-e]pteridin-8(4H)-yl]pentyl dihydrogen diphosphate' 
_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
C22 C21 XZQ doub 374 n y 
C22 C23 XZQ sing 375 n y 
C8 C7 XZQ sing 376 n n 
C21 C20 XZQ sing 377 n y 
C23 C18 XZQ doub 378 n y 
O2 C17 XZQ doub 379 n n 
C7 C6 XZQ doub 380 n y 
C7 C2 XZQ sing 381 n y 
O1 C9 XZQ sing 382 n n 
C20 C19 XZQ doub 383 n y 
C6 C5 XZQ sing 384 n y 
C9 C10 XZQ sing 385 n n 
C9 N1 XZQ sing 386 n n 
C18 C19 XZQ sing 387 n y 
C18 N2 XZQ sing 388 n n 
C10 C11 XZQ sing 389 n n 
C17 N2 XZQ sing 390 n n 
C17 C16 XZQ sing 391 n n 
C1 C2 XZQ sing 392 n n 
C2 C3 XZQ doub 393 n y 
C5 N1 XZQ sing 394 n n 
C5 C4 XZQ doub 395 n y 
N1 C25 XZQ sing 396 n n 
C24 C16 XZQ doub 397 n y 
C24 C12 XZQ sing 398 n y 
O3 C26 XZQ doub 399 n n 
C16 C15 XZQ sing 400 n y 
C11 C25 XZQ sing 401 n n 
C11 C12 XZQ sing 402 n n 
C3 C4 XZQ sing 403 n y 
C4 N5 XZQ sing 404 n n 
C25 C26 XZQ sing 405 n n 
C25 C28 XZQ sing 406 n n 
C12 C13 XZQ doub 407 n y 
C26 N3 XZQ sing 408 n n 
C15 C14 XZQ doub 409 n y 
N5 C28 XZQ sing 410 n n 
N5 C29 XZQ sing 411 n n 
C28 N4 XZQ doub 412 n n 
C13 C14 XZQ sing 413 n y 
N3 C27 XZQ sing 414 n n 
O5 C30 XZQ sing 415 n n 
N4 C27 XZQ sing 416 n n 
C29 C30 XZQ sing 417 n n 
C27 O4 XZQ doub 418 n n 
C30 C31 XZQ sing 419 n n 
O16 C42 XZQ sing 420 n n 
C31 O6 XZQ sing 421 n n 
C31 C32 XZQ sing 422 n n 
C42 C43 XZQ sing 423 n n 
C42 C36 XZQ sing 424 n n 
O12 P2 XZQ doub 425 n n 
O7 C32 XZQ sing 426 n n 
C43 O17 XZQ sing 427 n n 
C43 C35 XZQ sing 428 n n 
C37 N7 XZQ doub 429 n y 
C37 N6 XZQ sing 430 n y 
N7 C38 XZQ sing 431 n y 
O13 P2 XZQ sing 432 n n 
C32 C33 XZQ sing 433 n n 
P2 O14 XZQ sing 434 n n 
P2 O11 XZQ sing 435 n n 
N6 C36 XZQ sing 436 n n 
N6 C41 XZQ sing 437 n y 
C36 O15 XZQ sing 438 n n 
C38 C41 XZQ doub 439 n y 
C38 C39 XZQ sing 440 n y 
C33 O8 XZQ sing 441 n n 
N8 C39 XZQ sing 442 n n 
C41 N10 XZQ sing 443 n y 
C35 C34 XZQ sing 444 n n 
C35 O15 XZQ sing 445 n n 
C34 O14 XZQ sing 446 n n 
C39 N9 XZQ doub 447 n y 
O8 P1 XZQ sing 448 n n 
O11 P1 XZQ sing 449 n n 
N10 C40 XZQ doub 450 n y 
N9 C40 XZQ sing 451 n y 
P1 O10 XZQ doub 452 n n 
P1 O9 XZQ sing 453 n n 
N2 H1 XZQ sing 454 n n 
C3 H2 XZQ sing 455 n n 
C6 H3 XZQ sing 456 n n 
C8 H4 XZQ sing 457 n n 
C8 H5 XZQ sing 458 n n 
C8 H6 XZQ sing 459 n n 
C9 H7 XZQ sing 460 n n 
C10 H8 XZQ sing 461 n n 
C10 H9 XZQ sing 462 n n 
C11 H10 XZQ sing 463 n n 
C15 H11 XZQ sing 464 n n 
C19 H12 XZQ sing 465 n n 
C20 H13 XZQ sing 466 n n 
C21 H14 XZQ sing 467 n n 
C22 H15 XZQ sing 468 n n 
C23 H16 XZQ sing 469 n n 
C24 H17 XZQ sing 470 n n 
C29 H19 XZQ sing 471 n n 
C29 H20 XZQ sing 472 n n 
C30 H21 XZQ sing 473 n n 
C31 H22 XZQ sing 474 n n 
C32 H23 XZQ sing 475 n n 
C33 H24 XZQ sing 476 n n 
C33 H25 XZQ sing 477 n n 
C34 H26 XZQ sing 478 n n 
C34 H27 XZQ sing 479 n n 
C35 H28 XZQ sing 480 n n 
C36 H29 XZQ sing 481 n n 
C40 H30 XZQ sing 482 n n 
C42 H31 XZQ sing 483 n n 
C43 H32 XZQ sing 484 n n 
C1 H33 XZQ sing 485 n n 
C1 H34 XZQ sing 486 n n 
C1 H35 XZQ sing 487 n n 
O1 H36 XZQ sing 488 n n 
C13 H37 XZQ sing 489 n n 
C14 H38 XZQ sing 490 n n 
N3 H39 XZQ sing 491 n n 
O5 H41 XZQ sing 492 n n 
O6 H42 XZQ sing 493 n n 
O7 H43 XZQ sing 494 n n 
O9 H44 XZQ sing 495 n n 
O13 H45 XZQ sing 496 n n 
C37 H46 XZQ sing 497 n n 
N8 H47 XZQ sing 498 n n 
N8 H48 XZQ sing 499 n n 
O16 H49 XZQ sing 500 n n 
O17 H50 XZQ sing 501 n n 
#
_atom_sites.entry_id                     8FJ4 
_atom_sites.fract_transf_matrix[1][1]    0.00845 
_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]    0.005563 
_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]    0.004304 
_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
C 3 XZU A 1 1401 1401 XZU DRG . 
D 3 XZU A 1 1402 1501 XZU DRG . 
E 3 XZU A 1 1403 1601 XZU DRG . 
F 4 XZQ A 1 1404 1701 XZQ DRB . 
#
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 N N2 XZQ . . . F 4 -7.981 51.17 80.72 1 0.5 ? N2 XZQ 1404 A 1 
HETATM 2 C C3 XZQ . . . F 4 -6.067 61.883 81.917 1 0.5 ? C3 XZQ 1404 A 1 
HETATM 3 C C4 XZQ . . . F 4 -6.714 60.66 82.016 1 0.5 ? C4 XZQ 1404 A 1 
HETATM 4 C C5 XZQ . . . F 4 -7.193 60.064 80.883 1 0.5 ? C5 XZQ 1404 A 1 
HETATM 5 C C6 XZQ . . . F 4 -7.046 60.643 79.647 1 0.5 ? C6 XZQ 1404 A 1 
HETATM 6 C C7 XZQ . . . F 4 -6.416 61.845 79.529 1 0.5 ? C7 XZQ 1404 A 1 
HETATM 7 C C8 XZQ . . . F 4 -6.245 62.479 78.185 1 0.5 ? C8 XZQ 1404 A 1 
HETATM 8 C C9 XZQ . . . F 4 -7.506 58.051 79.795 1 0.5 ? C9 XZQ 1404 A 1 
HETATM 9 C C10 XZQ . . . F 4 -6.315 57.25 80.277 1 0.5 ? C10 XZQ 1404 A 1 
HETATM 10 C C11 XZQ . . . F 4 -6.61 57.047 81.754 1 0.5 ? C11 XZQ 1404 A 1 
HETATM 11 C C12 XZQ . . . F 4 -6.834 55.609 82.135 1 0.5 ? C12 XZQ 1404 A 1 
HETATM 12 C C15 XZQ . . . F 4 -7.261 52.959 82.803 1 0.5 ? C15 XZQ 1404 A 1 
HETATM 13 C C16 XZQ . . . F 4 -7.453 53.383 81.503 1 0.5 ? C16 XZQ 1404 A 1 
HETATM 14 C C17 XZQ . . . F 4 -7.88 52.463 80.415 1 0.5 ? C17 XZQ 1404 A 1 
HETATM 15 C C18 XZQ . . . F 4 -8.647 50.196 79.962 1 0.5 ? C18 XZQ 1404 A 1 
HETATM 16 C C19 XZQ . . . F 4 -8.585 48.874 80.339 1 0.5 ? C19 XZQ 1404 A 1 
HETATM 17 C C20 XZQ . . . F 4 -9.225 47.918 79.58 1 0.5 ? C20 XZQ 1404 A 1 
HETATM 18 C C21 XZQ . . . F 4 -9.939 48.274 78.474 1 0.5 ? C21 XZQ 1404 A 1 
HETATM 19 C C22 XZQ . . . F 4 -10.015 49.586 78.106 1 0.5 ? C22 XZQ 1404 A 1 
HETATM 20 C C23 XZQ . . . F 4 -9.367 50.553 78.844 1 0.5 ? C23 XZQ 1404 A 1 
HETATM 21 C C24 XZQ . . . F 4 -7.24 54.706 81.174 1 0.5 ? C24 XZQ 1404 A 1 
HETATM 22 C C27 XZQ . . . F 4 -8.932 57.589 84.523 1 0.5 ? C27 XZQ 1404 A 1 
HETATM 23 C C28 XZQ . . . F 4 -7.581 58.867 83.328 1 0.5 ? C28 XZQ 1404 A 1 
HETATM 24 C C29 XZQ . . . F 4 -6.338 60.596 84.482 1 0.5 ? C29 XZQ 1404 A 1 
HETATM 25 C C30 XZQ . . . F 4 -7.217 61.637 85.1 1 0.5 ? C30 XZQ 1404 A 1 
HETATM 26 C C31 XZQ . . . F 4 -6.42 62.558 86.013 1 0.5 ? C31 XZQ 1404 A 1 
HETATM 27 C C32 XZQ . . . F 4 -7.189 63.229 87.136 1 0.5 ? C32 XZQ 1404 A 1 
HETATM 28 C C33 XZQ . . . F 4 -6.324 64.23 87.85 1 0.5 ? C33 XZQ 1404 A 1 
HETATM 29 C C34 XZQ . . . F 4 -6.007 70.411 88.208 1 0.5 ? C34 XZQ 1404 A 1 
HETATM 30 C C35 XZQ . . . F 4 -6.758 71.706 88.172 1 0.5 ? C35 XZQ 1404 A 1 
HETATM 31 C C36 XZQ . . . F 4 -6.083 73.818 87.624 1 0.5 ? C36 XZQ 1404 A 1 
HETATM 32 C C38 XZQ . . . F 4 -3.508 76.292 87.827 1 0.5 ? C38 XZQ 1404 A 1 
HETATM 33 C C39 XZQ . . . F 4 -3.135 77.56 88.271 1 0.5 ? C39 XZQ 1404 A 1 
HETATM 34 C C40 XZQ . . . F 4 -5.243 77.743 89.161 1 0.5 ? C40 XZQ 1404 A 1 
HETATM 35 C C41 XZQ . . . F 4 -4.781 75.888 88.116 1 0.5 ? C41 XZQ 1404 A 1 
HETATM 36 C C42 XZQ . . . F 4 -6.436 73.16 86.317 1 0.5 ? C42 XZQ 1404 A 1 
HETATM 37 C C43 XZQ . . . F 4 -7.383 72.088 86.831 1 0.5 ? C43 XZQ 1404 A 1 
HETATM 38 C C1 XZQ . . . F 4 -5.204 63.801 80.576 1 0.5 ? C1 XZQ 1404 A 1 
HETATM 39 C C2 XZQ . . . F 4 -5.911 62.484 80.699 1 0.5 ? C2 XZQ 1404 A 1 
HETATM 40 N N1 XZQ . . . F 4 -7.835 58.876 80.917 1 0.5 ? N1 XZQ 1404 A 1 
HETATM 41 O O1 XZQ . . . F 4 -8.609 57.256 79.558 1 0.5 ? O1 XZQ 1404 A 1 
HETATM 42 C C13 XZQ . . . F 4 -6.639 55.169 83.426 1 0.5 ? C13 XZQ 1404 A 1 
HETATM 43 C C14 XZQ . . . F 4 -6.853 53.852 83.763 1 0.5 ? C14 XZQ 1404 A 1 
HETATM 44 O O2 XZQ . . . F 4 -8.11 52.895 79.305 1 0.5 ? O2 XZQ 1404 A 1 
HETATM 45 C C25 XZQ . . . F 4 -7.761 58.039 82.097 1 0.5 ? C25 XZQ 1404 A 1 
HETATM 46 C C26 XZQ . . . F 4 -9.095 57.371 82.213 1 0.5 ? C26 XZQ 1404 A 1 
HETATM 47 O O3 XZQ . . . F 4 -9.77 57.13 81.242 1 0.5 ? O3 XZQ 1404 A 1 
HETATM 48 N N3 XZQ . . . F 4 -9.522 57.071 83.43 1 0.5 ? N3 XZQ 1404 A 1 
HETATM 49 O O4 XZQ . . . F 4 -9.258 57.168 85.596 1 0.5 ? O4 XZQ 1404 A 1 
HETATM 50 N N4 XZQ . . . F 4 -8.042 58.522 84.469 1 0.5 ? N4 XZQ 1404 A 1 
HETATM 51 N N5 XZQ . . . F 4 -6.906 60.013 83.25 1 0.5 ? N5 XZQ 1404 A 1 
HETATM 52 O O5 XZQ . . . F 4 -7.633 62.415 84.053 1 0.5 ? O5 XZQ 1404 A 1 
HETATM 53 O O6 XZQ . . . F 4 -5.431 61.83 86.63 1 0.5 ? O6 XZQ 1404 A 1 
HETATM 54 O O7 XZQ . . . F 4 -8.316 63.892 86.594 1 0.5 ? O7 XZQ 1404 A 1 
HETATM 55 O O8 XZQ . . . F 4 -7.053 65.272 88.502 1 0.5 ? O8 XZQ 1404 A 1 
HETATM 56 P P1 XZQ . . . F 4 -6.279 66.139 89.541 1 0.5 ? P1 XZQ 1404 A 1 
HETATM 57 O O9 XZQ . . . F 4 -7.225 66.582 90.564 1 0.5 ? O9 XZQ 1404 A 1 
HETATM 58 O O10 XZQ . . . F 4 -5.043 65.488 89.942 1 0.5 -1 O10 XZQ 1404 A 1 
HETATM 59 O O11 XZQ . . . F 4 -5.807 67.324 88.647 1 0.5 ? O11 XZQ 1404 A 1 
HETATM 60 P P2 XZQ . . . F 4 -6.501 68.088 87.487 1 0.5 ? P2 XZQ 1404 A 1 
HETATM 61 O O12 XZQ . . . F 4 -5.476 68.458 86.522 1 0.5 ? O12 XZQ 1404 A 1 
HETATM 62 O O13 XZQ . . . F 4 -7.69 67.324 87.123 1 0.5 -1 O13 XZQ 1404 A 1 
HETATM 63 O O14 XZQ . . . F 4 -6.944 69.355 88.261 1 0.5 ? O14 XZQ 1404 A 1 
HETATM 64 O O15 XZQ . . . F 4 -5.806 72.741 88.458 1 0.5 ? O15 XZQ 1404 A 1 
HETATM 65 N N6 XZQ . . . F 4 -4.907 74.654 87.568 1 0.5 ? N6 XZQ 1404 A 1 
HETATM 66 C C37 XZQ . . . F 4 -3.709 74.369 86.991 1 0.5 ? C37 XZQ 1404 A 1 
HETATM 67 N N7 XZQ . . . F 4 -2.84 75.325 87.115 1 0.5 ? N7 XZQ 1404 A 1 
HETATM 68 N N8 XZQ . . . F 4 -1.943 78.088 88.073 1 0.5 ? N8 XZQ 1404 A 1 
HETATM 69 N N9 XZQ . . . F 4 -4.037 78.265 88.963 1 0.5 ? N9 XZQ 1404 A 1 
HETATM 70 N N10 XZQ . . . F 4 -5.709 76.572 88.783 1 0.5 ? N10 XZQ 1404 A 1 
HETATM 71 O O16 XZQ . . . F 4 -7.077 74.132 85.54 1 0.5 ? O16 XZQ 1404 A 1 
HETATM 72 O O17 XZQ . . . F 4 -8.656 72.669 87.032 1 0.5 ? O17 XZQ 1404 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           20 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           289 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           72 
#