data_1SD2 # _model_server_result.job_id y3uXYfqjzJ1yCCTGCDCtfA _model_server_result.datetime_utc '2024-10-18 16:32:42' _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 1sd2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":285}' # _entry.id 1SD2 # _exptl.entry_id 1SD2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 296.345 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-(4-AMINO-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-METHYLSULFANYLMETHYL-TETRAHYDRO-FURAN-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 120 _cell.entry_id 1SD2 _cell.length_a 119.5 _cell.length_b 119.5 _cell.length_c 44.2 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1SD2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 3 2 1' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 119.5 0 0 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 59.75 103.490036 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C12 H16 N4 O3 S' _chem_comp.formula_weight 296.345 _chem_comp.id MTH _chem_comp.mon_nstd_flag . _chem_comp.name 2-(4-AMINO-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-METHYLSULFANYLMETHYL-TETRAHYDRO-FURAN-3,4-DIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "5'-DEOXY-5'-(METHYLTHIO)-TUBERCIDIN" # 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 CS S5' MTH sing 237 n n CS HCS1 MTH sing 238 n n CS HCS2 MTH sing 239 n n CS HCS3 MTH sing 240 n n S5' C5' MTH sing 241 n n C5' C4' MTH sing 242 n n C5' "H5'1" MTH sing 243 n n C5' "H5'2" MTH sing 244 n n C4' O4' MTH sing 245 n n C4' C3' MTH sing 246 n n C4' "H4'1" MTH sing 247 n n O4' C1' MTH sing 248 n n C2' O2' MTH sing 249 n n C2' C3' MTH sing 250 n n C2' C1' MTH sing 251 n n C2' "H2'1" MTH sing 252 n n O2' HO21 MTH sing 253 n n C3' O3' MTH sing 254 n n C3' "H3'1" MTH sing 255 n n O3' HO31 MTH sing 256 n n C1' N9 MTH sing 257 n n C1' "H1'1" MTH sing 258 n n N9 C8 MTH sing 259 n y N9 C4 MTH sing 260 n y C8 C7 MTH doub 261 n y C8 HC81 MTH sing 262 n n C7 C5 MTH sing 263 n y C7 HC71 MTH sing 264 n n C5 C6 MTH doub 265 n y C5 C4 MTH sing 266 n y C6 N6 MTH sing 267 n n C6 N1 MTH sing 268 n y N6 HN61 MTH sing 269 n n N6 HN62 MTH sing 270 n n N1 C2 MTH doub 271 n y C2 N3 MTH sing 272 n y C2 HC21 MTH sing 273 n n N3 C4 MTH doub 274 n y # _atom_sites.entry_id 1SD2 _atom_sites.fract_transf_matrix[1][1] 0.008368 _atom_sites.fract_transf_matrix[1][2] 0.004831 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009663 _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] 0.022624 _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 SO4 A 1 284 282 SO4 SO4 . C 3 MTH A 1 285 283 MTH MTT . D 4 HOH A 1 286 1 HOH TIP . D 4 HOH A 2 287 2 HOH TIP . D 4 HOH A 3 288 3 HOH TIP . D 4 HOH A 4 289 4 HOH TIP . D 4 HOH A 5 290 5 HOH TIP . D 4 HOH A 6 291 6 HOH TIP . D 4 HOH A 7 292 7 HOH TIP . D 4 HOH A 8 293 8 HOH TIP . D 4 HOH A 9 294 9 HOH TIP . D 4 HOH A 10 295 10 HOH TIP . D 4 HOH A 11 296 11 HOH TIP . D 4 HOH A 12 297 13 HOH TIP . D 4 HOH A 13 298 14 HOH TIP . D 4 HOH A 14 299 15 HOH TIP . D 4 HOH A 15 300 16 HOH TIP . D 4 HOH A 16 301 17 HOH TIP . D 4 HOH A 17 302 19 HOH TIP . D 4 HOH A 18 303 20 HOH TIP . D 4 HOH A 19 304 21 HOH TIP . D 4 HOH A 20 305 22 HOH TIP . D 4 HOH A 21 306 23 HOH TIP . D 4 HOH A 22 307 24 HOH TIP . D 4 HOH A 23 308 25 HOH TIP . D 4 HOH A 24 309 26 HOH TIP . D 4 HOH A 25 310 27 HOH TIP . D 4 HOH A 26 311 28 HOH TIP . D 4 HOH A 27 312 29 HOH TIP . D 4 HOH A 28 313 30 HOH TIP . D 4 HOH A 29 314 31 HOH TIP . D 4 HOH A 30 315 32 HOH TIP . D 4 HOH A 31 316 33 HOH TIP . D 4 HOH A 32 317 34 HOH TIP . D 4 HOH A 33 318 35 HOH TIP . D 4 HOH A 34 319 36 HOH TIP . D 4 HOH A 35 320 37 HOH TIP . D 4 HOH A 36 321 38 HOH TIP . D 4 HOH A 37 322 39 HOH TIP . D 4 HOH A 38 323 40 HOH TIP . D 4 HOH A 39 324 41 HOH TIP . D 4 HOH A 40 325 42 HOH TIP . D 4 HOH A 41 326 43 HOH TIP . D 4 HOH A 42 327 44 HOH TIP . D 4 HOH A 43 328 45 HOH TIP . D 4 HOH A 44 329 46 HOH TIP . D 4 HOH A 45 330 47 HOH TIP . D 4 HOH A 46 331 48 HOH TIP . D 4 HOH A 47 332 49 HOH TIP . D 4 HOH A 48 333 50 HOH TIP . D 4 HOH A 49 334 51 HOH TIP . D 4 HOH A 50 335 52 HOH TIP . D 4 HOH A 51 336 53 HOH TIP . D 4 HOH A 52 337 54 HOH TIP . D 4 HOH A 53 338 55 HOH TIP . D 4 HOH A 54 339 56 HOH TIP . D 4 HOH A 55 340 57 HOH TIP . D 4 HOH A 56 341 58 HOH TIP . D 4 HOH A 57 342 59 HOH TIP . D 4 HOH A 58 343 60 HOH TIP . D 4 HOH A 59 344 61 HOH TIP . D 4 HOH A 60 345 62 HOH TIP . D 4 HOH A 61 346 63 HOH TIP . D 4 HOH A 62 347 64 HOH TIP . D 4 HOH A 63 348 66 HOH TIP . D 4 HOH A 64 349 67 HOH TIP . D 4 HOH A 65 350 68 HOH TIP . D 4 HOH A 66 351 69 HOH TIP . D 4 HOH A 67 352 70 HOH TIP . D 4 HOH A 68 353 71 HOH TIP . D 4 HOH A 69 354 72 HOH TIP . D 4 HOH A 70 355 73 HOH TIP . D 4 HOH A 71 356 74 HOH TIP . D 4 HOH A 72 357 75 HOH TIP . D 4 HOH A 73 358 76 HOH TIP . D 4 HOH A 74 359 77 HOH TIP . D 4 HOH A 75 360 78 HOH TIP . D 4 HOH A 76 361 79 HOH TIP . D 4 HOH A 77 362 80 HOH TIP . D 4 HOH A 78 363 81 HOH TIP . D 4 HOH A 79 364 82 HOH TIP . D 4 HOH A 80 365 83 HOH TIP . D 4 HOH A 81 366 84 HOH TIP . D 4 HOH A 82 367 85 HOH TIP . D 4 HOH A 83 368 86 HOH TIP . D 4 HOH A 84 369 87 HOH TIP . D 4 HOH A 85 370 88 HOH TIP . D 4 HOH A 86 371 89 HOH TIP . D 4 HOH A 87 372 90 HOH TIP . D 4 HOH A 88 373 91 HOH TIP . D 4 HOH A 89 374 92 HOH TIP . D 4 HOH A 90 375 93 HOH TIP . D 4 HOH A 91 376 94 HOH TIP . D 4 HOH A 92 377 95 HOH TIP . D 4 HOH A 93 378 96 HOH TIP . D 4 HOH A 94 379 97 HOH TIP . D 4 HOH A 95 380 98 HOH TIP . D 4 HOH A 96 381 99 HOH TIP . D 4 HOH A 97 382 100 HOH TIP . D 4 HOH A 98 383 101 HOH TIP . D 4 HOH A 99 384 102 HOH TIP . D 4 HOH A 100 385 103 HOH TIP . D 4 HOH A 101 386 104 HOH TIP . D 4 HOH A 102 387 105 HOH TIP . D 4 HOH A 103 388 106 HOH TIP . D 4 HOH A 104 389 107 HOH TIP . D 4 HOH A 105 390 108 HOH TIP . D 4 HOH A 106 391 109 HOH TIP . D 4 HOH A 107 392 110 HOH TIP . D 4 HOH A 108 393 111 HOH TIP . D 4 HOH A 109 394 112 HOH TIP . D 4 HOH A 110 395 113 HOH TIP . D 4 HOH A 111 396 114 HOH TIP . D 4 HOH A 112 397 115 HOH TIP . D 4 HOH A 113 398 116 HOH TIP . D 4 HOH A 114 399 117 HOH TIP . D 4 HOH A 115 400 118 HOH TIP . D 4 HOH A 116 401 119 HOH TIP . D 4 HOH A 117 402 120 HOH TIP . D 4 HOH A 118 403 121 HOH TIP . D 4 HOH A 119 404 122 HOH TIP . D 4 HOH A 120 405 123 HOH TIP . D 4 HOH A 121 406 124 HOH TIP . D 4 HOH A 122 407 125 HOH TIP . D 4 HOH A 123 408 126 HOH TIP . D 4 HOH A 124 409 127 HOH TIP . D 4 HOH A 125 410 128 HOH TIP . D 4 HOH A 126 411 129 HOH TIP . D 4 HOH A 127 412 130 HOH TIP . D 4 HOH A 128 413 131 HOH TIP . D 4 HOH A 129 414 132 HOH TIP . D 4 HOH A 130 415 133 HOH TIP . D 4 HOH A 131 416 134 HOH TIP . D 4 HOH A 132 417 135 HOH TIP . D 4 HOH A 133 418 136 HOH TIP . D 4 HOH A 134 419 137 HOH TIP . D 4 HOH A 135 420 138 HOH TIP . D 4 HOH A 136 421 139 HOH TIP . D 4 HOH A 137 422 140 HOH TIP . D 4 HOH A 138 423 141 HOH TIP . D 4 HOH A 139 424 142 HOH TIP . D 4 HOH A 140 425 143 HOH TIP . D 4 HOH A 141 426 144 HOH TIP . D 4 HOH A 142 427 145 HOH TIP . D 4 HOH A 143 428 146 HOH TIP . D 4 HOH A 144 429 147 HOH TIP . D 4 HOH A 145 430 148 HOH TIP . D 4 HOH A 146 431 149 HOH TIP . D 4 HOH A 147 432 150 HOH TIP . D 4 HOH A 148 433 151 HOH TIP . D 4 HOH A 149 434 152 HOH TIP . D 4 HOH A 150 435 153 HOH TIP . D 4 HOH A 151 436 154 HOH TIP . # 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 CS MTH . . . C 3 58.481 12.553 32.705 1 32.47 ? CS MTH 285 A 1 HETATM 2 S S5' MTH . . . C 3 58.178 13.446 31.15 1 37.72 ? S5' MTH 285 A 1 HETATM 3 C C5' MTH . . . C 3 58.853 15.103 31.554 1 33.13 ? C5' MTH 285 A 1 HETATM 4 C C4' MTH . . . C 3 60.375 15.154 31.636 1 28.15 ? C4' MTH 285 A 1 HETATM 5 O O4' MTH . . . C 3 60.914 14.648 30.371 1 29.24 ? O4' MTH 285 A 1 HETATM 6 C C2' MTH . . . C 3 61.563 16.933 30.466 1 24.42 ? C2' MTH 285 A 1 HETATM 7 O O2' MTH . . . C 3 62.935 17.444 30.591 1 23.62 ? O2' MTH 285 A 1 HETATM 8 C C3' MTH . . . C 3 60.94 16.552 31.885 1 26.91 ? C3' MTH 285 A 1 HETATM 9 O O3' MTH . . . C 3 61.967 16.516 32.954 1 27.7 ? O3' MTH 285 A 1 HETATM 10 C C1' MTH . . . C 3 61.528 15.674 29.533 1 23.83 ? C1' MTH 285 A 1 HETATM 11 N N9 MTH . . . C 3 60.654 15.792 28.18 1 21.39 ? N9 MTH 285 A 1 HETATM 12 C C8 MTH . . . C 3 60.384 14.736 27.311 1 19.48 ? C8 MTH 285 A 1 HETATM 13 C C7 MTH . . . C 3 59.643 15.053 26.262 1 17.07 ? C7 MTH 285 A 1 HETATM 14 C C5 MTH . . . C 3 59.396 16.405 26.432 1 16.92 ? C5 MTH 285 A 1 HETATM 15 C C6 MTH . . . C 3 58.663 17.382 25.679 1 15.85 ? C6 MTH 285 A 1 HETATM 16 N N6 MTH . . . C 3 58.019 17.081 24.538 1 16.03 ? N6 MTH 285 A 1 HETATM 17 N N1 MTH . . . C 3 58.641 18.681 26.184 1 16.86 ? N1 MTH 285 A 1 HETATM 18 C C2 MTH . . . C 3 59.283 18.992 27.333 1 16.08 ? C2 MTH 285 A 1 HETATM 19 N N3 MTH . . . C 3 59.999 18.154 28.117 1 17.42 ? N3 MTH 285 A 1 HETATM 20 C C4 MTH . . . C 3 60.011 16.875 27.605 1 17.54 ? C4 MTH 285 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 4 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #