data_9DON # _model_server_result.job_id 58TFtlxPtUb86-JfDAGH4Q _model_server_result.datetime_utc '2025-07-27 11:44:37' _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 9don # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 9DON # _exptl.entry_id 9DON _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 514.878 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-[3-[[2-azanyl-7-[(5-chloranyl-1-benzofuran-2-yl)methyl]-6-oxidanylidene-1~{H}-purin-9-yl]methyl]phenyl]ethylphosphonic acid' _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 97.38 _cell.angle_gamma 90 _cell.entry_id 9DON _cell.length_a 49.194 _cell.length_b 74.397 _cell.length_c 52.454 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9DON _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C23 H22 Cl N5 O5 P 1' _chem_comp.formula_weight 514.878 _chem_comp.id A1A8P _chem_comp.mon_nstd_flag . _chem_comp.name '2-[3-[[2-azanyl-7-[(5-chloranyl-1-benzofuran-2-yl)methyl]-6-oxidanylidene-1~{H}-purin-9-yl]methyl]phenyl]ethylphosphonic acid' _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 CL C19 A1A8P sing 1 n n C19 C18 A1A8P doub 2 n y C19 C20 A1A8P sing 3 n y C18 C17 A1A8P sing 4 n y C20 C21 A1A8P doub 5 n y C17 C16 A1A8P sing 6 n y C17 C22 A1A8P doub 7 n y C16 C15 A1A8P doub 8 n y C21 C22 A1A8P sing 9 n y C22 O4 A1A8P sing 10 n y C15 O4 A1A8P sing 11 n y C15 C14 A1A8P sing 12 n n C14 N4 A1A8P sing 13 n n O C A1A8P doub 14 n n C C2 A1A8P sing 15 n n C N A1A8P sing 16 n n N4 C2 A1A8P sing 17 n y N4 C13 A1A8P doub 18 n y C2 C3 A1A8P doub 19 n y N C1 A1A8P sing 20 n n C13 N3 A1A8P sing 21 n y O1 P A1A8P doub 22 n n O2 P A1A8P sing 23 n n C3 N3 A1A8P sing 24 n y C3 N2 A1A8P sing 25 n n P O3 A1A8P sing 26 n n P C11 A1A8P sing 27 n n N3 C4 A1A8P sing 28 n n C1 N2 A1A8P doub 29 n n C1 N1 A1A8P sing 30 n n C4 C5 A1A8P sing 31 n n C10 C11 A1A8P sing 32 n n C10 C9 A1A8P sing 33 n n C12 C5 A1A8P doub 34 n y C12 C9 A1A8P sing 35 n y C5 C6 A1A8P sing 36 n y C9 C8 A1A8P doub 37 n y C6 C7 A1A8P doub 38 n y C8 C7 A1A8P sing 39 n y C4 H1 A1A8P sing 40 n n C4 H2 A1A8P sing 41 n n C6 H3 A1A8P sing 42 n n C7 H4 A1A8P sing 43 n n N1 H5 A1A8P sing 44 n n N1 H6 A1A8P sing 45 n n C8 H7 A1A8P sing 46 n n C18 H8 A1A8P sing 47 n n C20 H9 A1A8P sing 48 n n C21 H10 A1A8P sing 49 n n C16 H11 A1A8P sing 50 n n C14 H12 A1A8P sing 51 n n C14 H13 A1A8P sing 52 n n C13 H14 A1A8P sing 53 n n N H15 A1A8P sing 54 n n C12 H16 A1A8P sing 55 n n C10 H17 A1A8P sing 56 n n C10 H18 A1A8P sing 57 n n C11 H19 A1A8P sing 58 n n C11 H20 A1A8P sing 59 n n O3 H21 A1A8P sing 60 n n O2 H22 A1A8P sing 61 n n # _atom_sites.entry_id 9DON _atom_sites.fract_transf_matrix[1][1] 0.020328 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002633 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013441 _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] 0.019224 _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 M7G A 1 301 301 M7G M7G . D 3 A1A8P B 1 301 301 A1A8P 121 . E 4 HOH A 1 401 103 HOH HOH . E 4 HOH A 2 402 123 HOH HOH . E 4 HOH A 3 403 111 HOH HOH . E 4 HOH A 4 404 155 HOH HOH . E 4 HOH A 5 405 75 HOH HOH . E 4 HOH A 6 406 163 HOH HOH . E 4 HOH A 7 407 5 HOH HOH . E 4 HOH A 8 408 36 HOH HOH . E 4 HOH A 9 409 13 HOH HOH . E 4 HOH A 10 410 117 HOH HOH . E 4 HOH A 11 411 64 HOH HOH . E 4 HOH A 12 412 45 HOH HOH . E 4 HOH A 13 413 94 HOH HOH . E 4 HOH A 14 414 121 HOH HOH . E 4 HOH A 15 415 29 HOH HOH . E 4 HOH A 16 416 73 HOH HOH . E 4 HOH A 17 417 136 HOH HOH . E 4 HOH A 18 418 3 HOH HOH . E 4 HOH A 19 419 71 HOH HOH . E 4 HOH A 20 420 10 HOH HOH . E 4 HOH A 21 421 127 HOH HOH . E 4 HOH A 22 422 159 HOH HOH . E 4 HOH A 23 423 51 HOH HOH . E 4 HOH A 24 424 12 HOH HOH . E 4 HOH A 25 425 39 HOH HOH . E 4 HOH A 26 426 41 HOH HOH . E 4 HOH A 27 427 37 HOH HOH . E 4 HOH A 28 428 153 HOH HOH . E 4 HOH A 29 429 48 HOH HOH . E 4 HOH A 30 430 108 HOH HOH . E 4 HOH A 31 431 44 HOH HOH . E 4 HOH A 32 432 20 HOH HOH . E 4 HOH A 33 433 68 HOH HOH . E 4 HOH A 34 434 47 HOH HOH . E 4 HOH A 35 435 8 HOH HOH . E 4 HOH A 36 436 38 HOH HOH . E 4 HOH A 37 437 27 HOH HOH . E 4 HOH A 38 438 148 HOH HOH . E 4 HOH A 39 439 83 HOH HOH . E 4 HOH A 40 440 42 HOH HOH . E 4 HOH A 41 441 50 HOH HOH . E 4 HOH A 42 442 17 HOH HOH . E 4 HOH A 43 443 156 HOH HOH . E 4 HOH A 44 444 105 HOH HOH . E 4 HOH A 45 445 31 HOH HOH . E 4 HOH A 46 446 114 HOH HOH . E 4 HOH A 47 447 98 HOH HOH . E 4 HOH A 48 448 145 HOH HOH . E 4 HOH A 49 449 18 HOH HOH . E 4 HOH A 50 450 102 HOH HOH . E 4 HOH A 51 451 151 HOH HOH . E 4 HOH A 52 452 28 HOH HOH . E 4 HOH A 53 453 46 HOH HOH . E 4 HOH A 54 454 138 HOH HOH . E 4 HOH A 55 455 25 HOH HOH . E 4 HOH A 56 456 76 HOH HOH . E 4 HOH A 57 457 43 HOH HOH . E 4 HOH A 58 458 61 HOH HOH . E 4 HOH A 59 459 122 HOH HOH . E 4 HOH A 60 460 80 HOH HOH . E 4 HOH A 61 461 95 HOH HOH . E 4 HOH A 62 462 152 HOH HOH . E 4 HOH A 63 463 6 HOH HOH . E 4 HOH A 64 464 35 HOH HOH . E 4 HOH A 65 465 84 HOH HOH . E 4 HOH A 66 466 70 HOH HOH . E 4 HOH A 67 467 62 HOH HOH . E 4 HOH A 68 468 78 HOH HOH . E 4 HOH A 69 469 72 HOH HOH . E 4 HOH A 70 470 162 HOH HOH . E 4 HOH A 71 471 160 HOH HOH . E 4 HOH A 72 472 99 HOH HOH . E 4 HOH A 73 473 157 HOH HOH . E 4 HOH A 74 474 154 HOH HOH . F 4 HOH B 1 401 139 HOH HOH . F 4 HOH B 2 402 14 HOH HOH . F 4 HOH B 3 403 90 HOH HOH . F 4 HOH B 4 404 91 HOH HOH . F 4 HOH B 5 405 2 HOH HOH . F 4 HOH B 6 406 118 HOH HOH . F 4 HOH B 7 407 54 HOH HOH . F 4 HOH B 8 408 52 HOH HOH . F 4 HOH B 9 409 88 HOH HOH . F 4 HOH B 10 410 9 HOH HOH . F 4 HOH B 11 411 21 HOH HOH . F 4 HOH B 12 412 110 HOH HOH . F 4 HOH B 13 413 137 HOH HOH . F 4 HOH B 14 414 66 HOH HOH . F 4 HOH B 15 415 92 HOH HOH . F 4 HOH B 16 416 59 HOH HOH . F 4 HOH B 17 417 60 HOH HOH . F 4 HOH B 18 418 115 HOH HOH . F 4 HOH B 19 419 144 HOH HOH . F 4 HOH B 20 420 7 HOH HOH . F 4 HOH B 21 421 128 HOH HOH . F 4 HOH B 22 422 23 HOH HOH . F 4 HOH B 23 423 116 HOH HOH . F 4 HOH B 24 424 77 HOH HOH . F 4 HOH B 25 425 149 HOH HOH . F 4 HOH B 26 426 124 HOH HOH . F 4 HOH B 27 427 11 HOH HOH . F 4 HOH B 28 428 56 HOH HOH . F 4 HOH B 29 429 146 HOH HOH . F 4 HOH B 30 430 93 HOH HOH . F 4 HOH B 31 431 40 HOH HOH . F 4 HOH B 32 432 85 HOH HOH . F 4 HOH B 33 433 67 HOH HOH . F 4 HOH B 34 434 34 HOH HOH . F 4 HOH B 35 435 22 HOH HOH . F 4 HOH B 36 436 55 HOH HOH . F 4 HOH B 37 437 24 HOH HOH . F 4 HOH B 38 438 53 HOH HOH . F 4 HOH B 39 439 65 HOH HOH . F 4 HOH B 40 440 33 HOH HOH . F 4 HOH B 41 441 82 HOH HOH . F 4 HOH B 42 442 15 HOH HOH . F 4 HOH B 43 443 16 HOH HOH . F 4 HOH B 44 444 104 HOH HOH . F 4 HOH B 45 445 143 HOH HOH . F 4 HOH B 46 446 141 HOH HOH . F 4 HOH B 47 447 87 HOH HOH . F 4 HOH B 48 448 57 HOH HOH . F 4 HOH B 49 449 147 HOH HOH . F 4 HOH B 50 450 74 HOH HOH . F 4 HOH B 51 451 63 HOH HOH . F 4 HOH B 52 452 81 HOH HOH . F 4 HOH B 53 453 89 HOH HOH . F 4 HOH B 54 454 133 HOH HOH . F 4 HOH B 55 455 69 HOH HOH . F 4 HOH B 56 456 106 HOH HOH . F 4 HOH B 57 457 107 HOH HOH . F 4 HOH B 58 458 101 HOH HOH . F 4 HOH B 59 459 125 HOH HOH . F 4 HOH B 60 460 32 HOH HOH . F 4 HOH B 61 461 130 HOH HOH . F 4 HOH B 62 462 120 HOH HOH . F 4 HOH B 63 463 119 HOH HOH . F 4 HOH B 64 464 161 HOH HOH . F 4 HOH B 65 465 26 HOH HOH . F 4 HOH B 66 466 112 HOH HOH . F 4 HOH B 67 467 142 HOH HOH . F 4 HOH B 68 468 126 HOH HOH . F 4 HOH B 69 469 150 HOH HOH . F 4 HOH B 70 470 97 HOH HOH . F 4 HOH B 71 471 140 HOH HOH . F 4 HOH B 72 472 158 HOH HOH . F 4 HOH B 73 473 109 HOH HOH . F 4 HOH B 74 474 96 HOH HOH . F 4 HOH B 75 475 134 HOH HOH . F 4 HOH B 76 476 113 HOH HOH . F 4 HOH B 77 477 132 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 C1 A1A8P . . . D 3 25.718 -10.92 62.454 1 29.16 ? C1 A1A8P 301 B 1 HETATM 2 C C2 A1A8P . . . D 3 23.928 -9.911 60.717 1 30.51 ? C2 A1A8P 301 B 1 HETATM 3 C C3 A1A8P . . . D 3 23.734 -9.977 62.062 1 31.16 ? C3 A1A8P 301 B 1 HETATM 4 C C4 A1A8P . . . D 3 21.844 -9.235 63.609 1 36.46 ? C4 A1A8P 301 B 1 HETATM 5 C C5 A1A8P . . . D 3 22.2 -7.893 64.207 1 39.33 ? C5 A1A8P 301 B 1 HETATM 6 C C6 A1A8P . . . D 3 23.255 -7.772 65.102 1 40.04 ? C6 A1A8P 301 B 1 HETATM 7 C C7 A1A8P . . . D 3 23.644 -6.529 65.568 1 40.74 ? C7 A1A8P 301 B 1 HETATM 8 N N1 A1A8P . . . D 3 26.631 -11.5 63.239 1 29.11 ? N1 A1A8P 301 B 1 HETATM 9 N N2 A1A8P . . . D 3 24.582 -10.469 62.986 1 29.49 ? N2 A1A8P 301 B 1 HETATM 10 N N3 A1A8P . . . D 3 22.49 -9.454 62.308 1 33.39 ? N3 A1A8P 301 B 1 HETATM 11 N N4 A1A8P . . . D 3 22.78 -9.369 60.159 1 31.39 1 N4 A1A8P 301 B 1 HETATM 12 C C8 A1A8P . . . D 3 22.981 -5.39 65.142 1 41.76 ? C8 A1A8P 301 B 1 HETATM 13 CL CL A1A8P . . . D 3 19.58 -15.169 55.002 1 30.21 ? CL A1A8P 301 B 1 HETATM 14 C C19 A1A8P . . . D 3 19.789 -13.699 55.919 1 29.48 ? C19 A1A8P 301 B 1 HETATM 15 C C18 A1A8P . . . D 3 21.04 -13.111 55.963 1 29.12 ? C18 A1A8P 301 B 1 HETATM 16 C C20 A1A8P . . . D 3 18.707 -13.173 56.604 1 29.31 ? C20 A1A8P 301 B 1 HETATM 17 C C21 A1A8P . . . D 3 18.88 -12.035 57.38 1 29.45 ? C21 A1A8P 301 B 1 HETATM 18 C C22 A1A8P . . . D 3 20.143 -11.469 57.432 1 29.53 ? C22 A1A8P 301 B 1 HETATM 19 C C17 A1A8P . . . D 3 21.237 -11.968 56.741 1 29.19 ? C17 A1A8P 301 B 1 HETATM 20 C C16 A1A8P . . . D 3 22.35 -11.133 57.115 1 29.54 ? C16 A1A8P 301 B 1 HETATM 21 O O4 A1A8P . . . D 3 20.524 -10.39 58.211 1 30.06 ? O4 A1A8P 301 B 1 HETATM 22 C C15 A1A8P . . . D 3 21.885 -10.222 57.986 1 30.14 ? C15 A1A8P 301 B 1 HETATM 23 C C14 A1A8P . . . D 3 22.527 -9.086 58.738 1 30.89 ? C14 A1A8P 301 B 1 HETATM 24 C C A1A8P . . . D 3 25.153 -10.364 60.135 1 29.51 ? C A1A8P 301 B 1 HETATM 25 O O A1A8P . . . D 3 25.494 -10.339 58.96 1 29.1 ? O A1A8P 301 B 1 HETATM 26 C C13 A1A8P . . . D 3 21.93 -9.104 61.145 1 32.25 ? C13 A1A8P 301 B 1 HETATM 27 N N A1A8P . . . D 3 26.001 -10.863 61.111 1 29.12 ? N A1A8P 301 B 1 HETATM 28 C C12 A1A8P . . . D 3 21.533 -6.74 63.8 1 41.1 ? C12 A1A8P 301 B 1 HETATM 29 C C9 A1A8P . . . D 3 21.924 -5.48 64.246 1 42.91 ? C9 A1A8P 301 B 1 HETATM 30 C C10 A1A8P . . . D 3 21.27 -4.235 63.695 1 45.9 ? C10 A1A8P 301 B 1 HETATM 31 C C11 A1A8P . . . D 3 19.751 -4.246 63.768 1 48.87 ? C11 A1A8P 301 B 1 HETATM 32 P P A1A8P . . . D 3 18.905 -4.598 62.237 1 51.82 ? P A1A8P 301 B 1 HETATM 33 O O3 A1A8P . . . D 3 17.888 -5.682 62.423 1 52.19 ? O3 A1A8P 301 B 1 HETATM 34 O O2 A1A8P . . . D 3 18.275 -3.263 61.772 1 51.93 ? O2 A1A8P 301 B 1 HETATM 35 O O1 A1A8P . . . D 3 19.959 -4.986 61.17 1 52.4 ? O1 A1A8P 301 B 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 25 _model_server_stats.element_count 35 #