data_2Q5F # _model_server_result.job_id zPBjKYU5gG-nvrtPeYui3g _model_server_result.datetime_utc '2024-10-19 23:47:59' _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 2q5f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":273}' # _entry.id 2Q5F # _exptl.entry_id 2Q5F _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 564.598 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "(2S,3S,4R,5R,2'S,3'S,4'R,5'R)-2,2'-[DITHIOBIS(METHYLENE)]BIS[5-(6-AMINO-9H-PURIN-9-YL)TETRAHYDROFURAN-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 2Q5F _cell.length_a 62.959 _cell.length_b 75.088 _cell.length_c 118.49 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2Q5F _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,PQS _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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 62.959 0 0 3 'crystal symmetry operation' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 62.959 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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C20 H24 N10 O6 S2' _chem_comp.formula_weight 564.598 _chem_comp.id DTA _chem_comp.mon_nstd_flag . _chem_comp.name "(2S,3S,4R,5R,2'S,3'S,4'R,5'R)-2,2'-[DITHIOBIS(METHYLENE)]BIS[5-(6-AMINO-9H-PURIN-9-YL)TETRAHYDROFURAN-3,4-DIOL]" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "DI-(5'-THIOADENOSINE)" # 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 N62 C62 DTA sing 83 n n N62 H621 DTA sing 84 n n N62 H622 DTA sing 85 n n C62 C52 DTA doub 86 n y C62 N12 DTA sing 87 n y N12 C22 DTA doub 88 n y C22 N32 DTA sing 89 n y C22 H22 DTA sing 90 n n N32 C42 DTA doub 91 n y C42 C52 DTA sing 92 n y C42 N92 DTA sing 93 n y C52 N72 DTA sing 94 n y N72 C82 DTA doub 95 n y C82 N92 DTA sing 96 n y C82 H82 DTA sing 97 n n N92 C1' DTA sing 98 n n C1' C2' DTA sing 99 n n C1' O4' DTA sing 100 n n C1' H1' DTA sing 101 n n O4' C4' DTA sing 102 n n C2' O2' DTA sing 103 n n C2' C3' DTA sing 104 n n C2' H2' DTA sing 105 n n O2' HO2' DTA sing 106 n n C3' O3' DTA sing 107 n n C3' C4' DTA sing 108 n n C3' H3' DTA sing 109 n n O3' HO3' DTA sing 110 n n C4' C5' DTA sing 111 n n C4' H4' DTA sing 112 n n C5' S5' DTA sing 113 n n C5' "H5'1" DTA sing 114 n n C5' "H5'2" DTA sing 115 n n S5' S5R DTA sing 116 n n S5R C5R DTA sing 117 n n C5R C4R DTA sing 118 n n C5R H5R1 DTA sing 119 n n C5R H5R2 DTA sing 120 n n C4R O4R DTA sing 121 n n C4R C3R DTA sing 122 n n C4R H4R DTA sing 123 n n O4R C1R DTA sing 124 n n C3R C2R DTA sing 125 n n C3R O3R DTA sing 126 n n C3R H3R DTA sing 127 n n O3R HO3R DTA sing 128 n n C2R C1R DTA sing 129 n n C2R O2R DTA sing 130 n n C2R H2R DTA sing 131 n n O2R HO2R DTA sing 132 n n C1R N91 DTA sing 133 n n C1R H1R DTA sing 134 n n N91 C81 DTA sing 135 n y N91 C41 DTA sing 136 n y C81 N71 DTA doub 137 n y C81 H81 DTA sing 138 n n N71 C51 DTA sing 139 n y C51 C61 DTA sing 140 n y C51 C41 DTA doub 141 n y C41 N31 DTA sing 142 n y N31 C21 DTA doub 143 n y C21 N11 DTA sing 144 n y C21 H21 DTA sing 145 n n N11 C61 DTA doub 146 n y C61 N61 DTA sing 147 n n N61 H611 DTA sing 148 n n N61 H612 DTA sing 149 n n # _atom_sites.entry_id 2Q5F _atom_sites.fract_transf_matrix[1][1] 0.015883 _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] 0.013318 _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] 0.00844 _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 DTA A 1 273 1 DTA DTA . C 3 HOH A 1 274 1 HOH HOH . C 3 HOH A 2 275 2 HOH HOH . C 3 HOH A 3 276 3 HOH HOH . C 3 HOH A 4 277 4 HOH HOH . C 3 HOH A 5 278 5 HOH HOH . C 3 HOH A 6 279 6 HOH HOH . C 3 HOH A 7 280 7 HOH HOH . C 3 HOH A 8 281 8 HOH HOH . C 3 HOH A 9 282 9 HOH HOH . C 3 HOH A 10 283 11 HOH HOH . C 3 HOH A 11 284 12 HOH HOH . C 3 HOH A 12 285 13 HOH HOH . C 3 HOH A 13 286 14 HOH HOH . C 3 HOH A 14 287 15 HOH HOH . C 3 HOH A 15 288 16 HOH HOH . C 3 HOH A 16 289 17 HOH HOH . C 3 HOH A 17 290 18 HOH HOH . C 3 HOH A 18 291 19 HOH HOH . C 3 HOH A 19 292 20 HOH HOH . C 3 HOH A 20 293 23 HOH HOH . C 3 HOH A 21 294 24 HOH HOH . C 3 HOH A 22 295 25 HOH HOH . C 3 HOH A 23 296 26 HOH HOH . C 3 HOH A 24 297 27 HOH HOH . C 3 HOH A 25 298 28 HOH HOH . C 3 HOH A 26 299 29 HOH HOH . C 3 HOH A 27 300 30 HOH HOH . C 3 HOH A 28 301 31 HOH HOH . C 3 HOH A 29 302 34 HOH HOH . C 3 HOH A 30 303 36 HOH HOH . C 3 HOH A 31 304 37 HOH HOH . C 3 HOH A 32 305 38 HOH HOH . C 3 HOH A 33 306 39 HOH HOH . C 3 HOH A 34 307 45 HOH HOH . C 3 HOH A 35 308 46 HOH HOH . C 3 HOH A 36 309 48 HOH HOH . C 3 HOH A 37 310 51 HOH HOH . C 3 HOH A 38 311 52 HOH HOH . C 3 HOH A 39 312 54 HOH HOH . C 3 HOH A 40 313 57 HOH HOH . C 3 HOH A 41 314 62 HOH HOH . C 3 HOH A 42 315 63 HOH HOH . C 3 HOH A 43 316 64 HOH HOH . C 3 HOH A 44 317 65 HOH HOH . C 3 HOH A 45 318 67 HOH HOH . C 3 HOH A 46 319 68 HOH HOH . C 3 HOH A 47 320 69 HOH HOH . C 3 HOH A 48 321 70 HOH HOH . C 3 HOH A 49 322 71 HOH HOH . C 3 HOH A 50 323 72 HOH HOH . C 3 HOH A 51 324 73 HOH HOH . C 3 HOH A 52 325 74 HOH HOH . C 3 HOH A 53 326 75 HOH HOH . C 3 HOH A 54 327 76 HOH HOH . C 3 HOH A 55 328 77 HOH HOH . C 3 HOH A 56 329 78 HOH HOH . C 3 HOH A 57 330 79 HOH HOH . C 3 HOH A 58 331 80 HOH HOH . C 3 HOH A 59 332 81 HOH HOH . C 3 HOH A 60 333 82 HOH HOH . C 3 HOH A 61 334 83 HOH HOH . C 3 HOH A 62 335 84 HOH HOH . C 3 HOH A 63 336 85 HOH HOH . C 3 HOH A 64 337 86 HOH HOH . C 3 HOH A 65 338 87 HOH HOH . C 3 HOH A 66 339 88 HOH HOH . C 3 HOH A 67 340 90 HOH HOH . C 3 HOH A 68 341 91 HOH HOH . C 3 HOH A 69 342 92 HOH HOH . C 3 HOH A 70 343 94 HOH HOH . C 3 HOH A 71 344 95 HOH HOH . C 3 HOH A 72 345 96 HOH HOH . C 3 HOH A 73 346 97 HOH HOH . C 3 HOH A 74 347 99 HOH HOH . C 3 HOH A 75 348 101 HOH HOH . C 3 HOH A 76 349 102 HOH HOH . C 3 HOH A 77 350 104 HOH HOH . C 3 HOH A 78 351 105 HOH HOH . C 3 HOH A 79 352 106 HOH HOH . C 3 HOH A 80 353 109 HOH HOH . C 3 HOH A 81 354 110 HOH HOH . C 3 HOH A 82 355 111 HOH HOH . C 3 HOH A 83 356 112 HOH HOH . C 3 HOH A 84 357 113 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 N N62 DTA . . . B 2 18.517 3.011 6.782 1 22.85 ? N62 DTA 273 A 1 HETATM 2 C C62 DTA . . . B 2 18.707 4.176 7.425 1 25.51 ? C62 DTA 273 A 1 HETATM 3 N N12 DTA . . . B 2 19.918 4.472 7.915 1 24.2 ? N12 DTA 273 A 1 HETATM 4 C C22 DTA . . . B 2 20.135 5.608 8.56 1 25.1 ? C22 DTA 273 A 1 HETATM 5 N N32 DTA . . . B 2 19.194 6.509 8.774 1 24.88 ? N32 DTA 273 A 1 HETATM 6 C C42 DTA . . . B 2 17.955 6.287 8.322 1 25.75 ? C42 DTA 273 A 1 HETATM 7 C C52 DTA . . . B 2 17.677 5.112 7.625 1 24.95 ? C52 DTA 273 A 1 HETATM 8 N N72 DTA . . . B 2 16.387 5.163 7.295 1 26.17 ? N72 DTA 273 A 1 HETATM 9 C C82 DTA . . . B 2 15.889 6.326 7.75 1 26.01 ? C82 DTA 273 A 1 HETATM 10 N N92 DTA . . . B 2 16.844 7.017 8.384 1 25.35 ? N92 DTA 273 A 1 HETATM 11 C C1' DTA . . . B 2 16.716 8.36 9.037 1 26.11 ? C1' DTA 273 A 1 HETATM 12 O O4' DTA . . . B 2 15.454 8.435 9.761 1 27.74 ? O4' DTA 273 A 1 HETATM 13 C C2' DTA . . . B 2 16.649 9.473 7.965 1 26.55 ? C2' DTA 273 A 1 HETATM 14 O O2' DTA . . . B 2 17.826 10.3 8.006 1 27.75 ? O2' DTA 273 A 1 HETATM 15 C C3' DTA . . . B 2 15.381 10.287 8.358 1 27.71 ? C3' DTA 273 A 1 HETATM 16 O O3' DTA . . . B 2 15.587 11.712 8.288 1 25.14 ? O3' DTA 273 A 1 HETATM 17 C C4' DTA . . . B 2 15.13 9.845 9.812 1 29.02 ? C4' DTA 273 A 1 HETATM 18 C C5' DTA . . . B 2 13.668 10.071 10.187 1 30.85 ? C5' DTA 273 A 1 HETATM 19 S S5' DTA . . . B 2 13.251 9.646 11.923 0.4 32.54 ? S5' DTA 273 A 1 HETATM 20 S S5R DTA . . . B 2 14.973 9.798 13.027 0.6 33.35 ? S5R DTA 273 A 1 HETATM 21 C C5R DTA . . . B 2 15.423 8.07 13.483 0.8 33.38 ? C5R DTA 273 A 1 HETATM 22 C C4R DTA . . . B 2 16.935 7.793 13.695 0.8 33.26 ? C4R DTA 273 A 1 HETATM 23 O O4R DTA . . . B 2 17.683 8.754 12.904 0.8 34.51 ? O4R DTA 273 A 1 HETATM 24 C C3R DTA . . . B 2 17.393 7.996 15.155 0.8 33.65 ? C3R DTA 273 A 1 HETATM 25 O O3R DTA . . . B 2 18.386 7.009 15.489 0.8 34.05 ? O3R DTA 273 A 1 HETATM 26 C C2R DTA . . . B 2 17.988 9.405 15.125 0.8 32.95 ? C2R DTA 273 A 1 HETATM 27 O O2R DTA . . . B 2 18.942 9.657 16.181 0.8 32.44 ? O2R DTA 273 A 1 HETATM 28 C C1R DTA . . . B 2 18.679 9.351 13.779 1 32.37 ? C1R DTA 273 A 1 HETATM 29 N N91 DTA . . . B 2 18.99 10.673 13.168 1 30.99 ? N91 DTA 273 A 1 HETATM 30 C C81 DTA . . . B 2 18.131 11.628 12.808 1 28.8 ? C81 DTA 273 A 1 HETATM 31 N N71 DTA . . . B 2 18.807 12.656 12.306 1 28.31 ? N71 DTA 273 A 1 HETATM 32 C C51 DTA . . . B 2 20.104 12.346 12.328 1 28.1 ? C51 DTA 273 A 1 HETATM 33 C C41 DTA . . . B 2 20.217 11.079 12.875 1 28.82 ? C41 DTA 273 A 1 HETATM 34 N N31 DTA . . . B 2 21.426 10.51 13.049 1 28.06 ? N31 DTA 273 A 1 HETATM 35 C C21 DTA . . . B 2 22.512 11.157 12.661 1 27.4 ? C21 DTA 273 A 1 HETATM 36 N N11 DTA . . . B 2 22.441 12.363 12.118 1 26.94 ? N11 DTA 273 A 1 HETATM 37 C C61 DTA . . . B 2 21.271 12.995 11.938 1 26.8 ? C61 DTA 273 A 1 HETATM 38 N N61 DTA . . . B 2 21.242 14.209 11.391 1 26.83 ? N61 DTA 273 A 1 # _model_server_stats.io_time_ms 42 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 38 #