data_9DRN
#
_model_server_result.job_id            OAgCZSXHfpPG5pRlRHoQhg 
_model_server_result.datetime_utc      '2025-05-22 07:58:11' 
_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          9drn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":301}' 
#
_entry.id    9DRN 
#
_exptl.entry_id    9DRN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              530.603 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5'-deoxy-5'-(4-{5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentyl}-1H-1,2,3-triazol-1-yl)adenosine" 
_entity.pdbx_number_of_molecules    2 
_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            9DRN 
_cell.length_a            62.865 
_cell.length_b            69.748 
_cell.length_c            115.458 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9DRN 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,E 1 1 
B,D,F 2 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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 D N N 
#
_chem_comp.formula           'C22 H30 N10 O4 S' 
_chem_comp.formula_weight    530.603 
_chem_comp.id                A1BGF 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "5'-deoxy-5'-(4-{5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentyl}-1H-1,2,3-triazol-1-yl)adenosine" 
_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
O35 C34 A1BGF sing 1 n n 
N33 N32 A1BGF doub 2 n y 
N33 N15 A1BGF sing 3 n y 
N32 C17 A1BGF sing 4 n y 
N15 C14 A1BGF sing 5 n n 
N15 C16 A1BGF sing 6 n y 
C14 C13 A1BGF sing 7 n n 
C13 C34 A1BGF sing 8 n n 
C13 O12 A1BGF sing 9 n n 
C17 C16 A1BGF doub 10 n y 
C17 C18 A1BGF sing 11 n n 
C34 C36 A1BGF sing 12 n n 
C18 C19 A1BGF sing 13 n n 
O37 C36 A1BGF sing 14 n n 
O12 C11 A1BGF sing 15 n n 
C36 C11 A1BGF sing 16 n n 
C19 C20 A1BGF sing 17 n n 
C11 N07 A1BGF sing 18 n n 
C20 C21 A1BGF sing 19 n n 
N07 C06 A1BGF sing 20 n y 
N07 C08 A1BGF sing 21 n y 
N05 C06 A1BGF doub 22 n y 
N05 C04 A1BGF sing 23 n y 
C21 C22 A1BGF sing 24 n n 
C06 C10 A1BGF sing 25 n y 
C08 N09 A1BGF doub 26 n y 
C04 N03 A1BGF doub 27 n y 
C22 C23 A1BGF sing 28 n n 
C10 N09 A1BGF sing 29 n y 
C10 C02 A1BGF doub 30 n y 
N30 C31 A1BGF sing 31 n n 
N30 C28 A1BGF sing 32 n n 
N03 C02 A1BGF sing 33 n y 
C31 C23 A1BGF sing 34 n n 
C31 C26 A1BGF sing 35 n n 
C23 S24 A1BGF sing 36 n n 
C02 N01 A1BGF sing 37 n n 
O29 C28 A1BGF doub 38 n n 
C28 N27 A1BGF sing 39 n n 
C26 N27 A1BGF sing 40 n n 
C26 C25 A1BGF sing 41 n n 
S24 C25 A1BGF sing 42 n n 
C18 H1 A1BGF sing 43 n n 
C18 H2 A1BGF sing 44 n n 
C16 H3 A1BGF sing 45 n n 
C14 H4 A1BGF sing 46 n n 
C14 H5 A1BGF sing 47 n n 
C13 H6 A1BGF sing 48 n n 
C11 H7 A1BGF sing 49 n n 
C20 H8 A1BGF sing 50 n n 
C21 H9 A1BGF sing 51 n n 
C22 H10 A1BGF sing 52 n n 
C22 H11 A1BGF sing 53 n n 
C23 H12 A1BGF sing 54 n n 
C25 H13 A1BGF sing 55 n n 
C25 H14 A1BGF sing 56 n n 
C26 H15 A1BGF sing 57 n n 
N30 H16 A1BGF sing 58 n n 
C31 H17 A1BGF sing 59 n n 
C04 H18 A1BGF sing 60 n n 
C08 H19 A1BGF sing 61 n n 
C19 H20 A1BGF sing 62 n n 
C19 H21 A1BGF sing 63 n n 
C34 H22 A1BGF sing 64 n n 
C36 H23 A1BGF sing 65 n n 
N01 H24 A1BGF sing 66 n n 
N01 H25 A1BGF sing 67 n n 
N27 H26 A1BGF sing 68 n n 
O35 H27 A1BGF sing 69 n n 
O37 H28 A1BGF sing 70 n n 
C20 H29 A1BGF sing 71 n n 
C21 H30 A1BGF sing 72 n n 
#
_atom_sites.entry_id                     9DRN 
_atom_sites.fract_transf_matrix[1][1]    0.015907 
_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]    0.014337 
_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]    0.008661 
_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 2 A1BGF B 1 301 1 A1BGF BI4 . 
D 2 A1BGF A 1 301 1 A1BGF BI4 . 
E 3 HOH B 1 401 6 HOH HOH . 
E 3 HOH B 2 402 51 HOH HOH . 
E 3 HOH B 3 403 15 HOH HOH . 
E 3 HOH B 4 404 5 HOH HOH . 
E 3 HOH B 5 405 8 HOH HOH . 
E 3 HOH B 6 406 49 HOH HOH . 
E 3 HOH B 7 407 1 HOH HOH . 
E 3 HOH B 8 408 7 HOH HOH . 
E 3 HOH B 9 409 42 HOH HOH . 
E 3 HOH B 10 410 43 HOH HOH . 
E 3 HOH B 11 411 28 HOH HOH . 
E 3 HOH B 12 412 34 HOH HOH . 
E 3 HOH B 13 413 35 HOH HOH . 
E 3 HOH B 14 414 32 HOH HOH . 
E 3 HOH B 15 415 41 HOH HOH . 
F 3 HOH A 1 401 17 HOH HOH . 
F 3 HOH A 2 402 36 HOH HOH . 
F 3 HOH A 3 403 13 HOH HOH . 
F 3 HOH A 4 404 50 HOH HOH . 
F 3 HOH A 5 405 20 HOH HOH . 
F 3 HOH A 6 406 52 HOH HOH . 
F 3 HOH A 7 407 26 HOH HOH . 
F 3 HOH A 8 408 33 HOH HOH . 
F 3 HOH A 9 409 22 HOH HOH . 
F 3 HOH A 10 410 21 HOH HOH . 
F 3 HOH A 11 411 19 HOH HOH . 
F 3 HOH A 12 412 14 HOH HOH . 
F 3 HOH A 13 413 11 HOH HOH . 
F 3 HOH A 14 414 12 HOH HOH . 
F 3 HOH A 15 415 54 HOH HOH . 
F 3 HOH A 16 416 30 HOH HOH . 
F 3 HOH A 17 417 45 HOH HOH . 
F 3 HOH A 18 418 47 HOH HOH . 
F 3 HOH A 19 419 31 HOH HOH . 
F 3 HOH A 20 420 23 HOH HOH . 
F 3 HOH A 21 421 18 HOH HOH . 
F 3 HOH A 22 422 24 HOH HOH . 
F 3 HOH A 23 423 46 HOH HOH . 
F 3 HOH A 24 424 38 HOH HOH . 
F 3 HOH A 25 425 25 HOH HOH . 
F 3 HOH A 26 426 16 HOH HOH . 
F 3 HOH A 27 427 3 HOH HOH . 
F 3 HOH A 28 428 40 HOH HOH . 
F 3 HOH A 29 429 29 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 C18 A1BGF . . . D 2 -5.077 -6.666 8.283 1 42.24 ? C18 A1BGF 301 A 1 
HETATM 2 C C17 A1BGF . . . D 2 -4.177 -5.52 7.882 1 43.63 ? C17 A1BGF 301 A 1 
HETATM 3 C C16 A1BGF . . . D 2 -4.204 -4.16 8.219 1 45.6 ? C16 A1BGF 301 A 1 
HETATM 4 C C14 A1BGF . . . D 2 -2.701 -2.128 7.601 1 51.89 ? C14 A1BGF 301 A 1 
HETATM 5 C C13 A1BGF . . . D 2 -3.767 -1.037 7.823 1 53.31 ? C13 A1BGF 301 A 1 
HETATM 6 C C10 A1BGF . . . D 2 -5.645 -0.64 13.041 1 46.59 ? C10 A1BGF 301 A 1 
HETATM 7 C C11 A1BGF . . . D 2 -4.906 0.01 9.437 1 52.18 ? C11 A1BGF 301 A 1 
HETATM 8 C C20 A1BGF . . . D 2 -3.826 -7.555 10.432 1 45.02 ? C20 A1BGF 301 A 1 
HETATM 9 C C21 A1BGF . . . D 2 -3.733 -8.705 11.433 1 39.16 ? C21 A1BGF 301 A 1 
HETATM 10 C C22 A1BGF . . . D 2 -3.509 -8.332 12.938 1 46.61 ? C22 A1BGF 301 A 1 
HETATM 11 C C23 A1BGF . . . D 2 -3.39 -9.547 13.886 1 46.58 ? C23 A1BGF 301 A 1 
HETATM 12 C C25 A1BGF . . . D 2 -2.929 -10.53 16.108 1 45.18 ? C25 A1BGF 301 A 1 
HETATM 13 C C26 A1BGF . . . D 2 -1.86 -11.061 15.209 1 38.72 ? C26 A1BGF 301 A 1 
HETATM 14 C C28 A1BGF . . . D 2 0.058 -9.829 14.496 1 52.36 ? C28 A1BGF 301 A 1 
HETATM 15 N N30 A1BGF . . . D 2 -0.894 -9.695 13.459 1 43.66 ? N30 A1BGF 301 A 1 
HETATM 16 C C31 A1BGF . . . D 2 -2.137 -10.417 13.776 1 40.56 ? C31 A1BGF 301 A 1 
HETATM 17 C C02 A1BGF . . . D 2 -6.593 -0.951 14.054 1 45.12 ? C02 A1BGF 301 A 1 
HETATM 18 C C04 A1BGF . . . D 2 -8.191 -0.947 12.363 1 41.81 ? C04 A1BGF 301 A 1 
HETATM 19 C C06 A1BGF . . . D 2 -6.114 -0.502 11.674 1 38.44 ? C06 A1BGF 301 A 1 
HETATM 20 C C08 A1BGF . . . D 2 -3.92 -0.19 11.805 1 54.4 ? C08 A1BGF 301 A 1 
HETATM 21 C C19 A1BGF . . . D 2 -4.481 -7.874 9.038 1 44.91 ? C19 A1BGF 301 A 1 
HETATM 22 C C34 A1BGF . . . D 2 -2.996 0.332 7.919 1 50.37 ? C34 A1BGF 301 A 1 
HETATM 23 C C36 A1BGF . . . D 2 -3.781 1.036 9.006 1 48.92 ? C36 A1BGF 301 A 1 
HETATM 24 N N01 A1BGF . . . D 2 -6.281 -1.11 15.412 1 46.81 ? N01 A1BGF 301 A 1 
HETATM 25 N N03 A1BGF . . . D 2 -7.885 -1.095 13.684 1 41.62 ? N03 A1BGF 301 A 1 
HETATM 26 N N05 A1BGF . . . D 2 -7.394 -0.656 11.324 1 42.13 ? N05 A1BGF 301 A 1 
HETATM 27 N N07 A1BGF . . . D 2 -5.033 -0.223 10.896 1 44.17 ? N07 A1BGF 301 A 1 
HETATM 28 N N09 A1BGF . . . D 2 -4.246 -0.427 13.08 1 48.16 ? N09 A1BGF 301 A 1 
HETATM 29 N N15 A1BGF . . . D 2 -3.147 -3.534 7.561 1 41.94 ? N15 A1BGF 301 A 1 
HETATM 30 N N27 A1BGF . . . D 2 -0.488 -10.611 15.51 1 48.76 ? N27 A1BGF 301 A 1 
HETATM 31 N N32 A1BGF . . . D 2 -3.079 -5.612 7.027 1 52.44 ? N32 A1BGF 301 A 1 
HETATM 32 N N33 A1BGF . . . D 2 -2.514 -4.505 6.862 1 53.91 ? N33 A1BGF 301 A 1 
HETATM 33 O O12 A1BGF . . . D 2 -4.44 -1.18 8.901 1 53.42 ? O12 A1BGF 301 A 1 
HETATM 34 O O29 A1BGF . . . D 2 1.19 -9.316 14.468 1 48.17 ? O29 A1BGF 301 A 1 
HETATM 35 O O35 A1BGF . . . D 2 -3.071 0.943 6.701 1 72.81 ? O35 A1BGF 301 A 1 
HETATM 36 O O37 A1BGF . . . D 2 -4.343 2.135 8.393 1 50.73 ? O37 A1BGF 301 A 1 
HETATM 37 S S24 A1BGF . . . D 2 -3.422 -8.89 15.548 1 44.99 ? S24 A1BGF 301 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           303 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           37 
#