data_3BGD # _model_server_result.job_id 05SkbYZsb3gsGXdtdDyi1Q _model_server_result.datetime_utc '2024-11-23 15:31:59' _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 3bgd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":302}' # _entry.id 3BGD # _exptl.entry_id 3BGD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 152.177 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 9H-purine-6-thiol _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 115.78 _cell.angle_gamma 90 _cell.entry_id 3BGD _cell.length_a 62.89 _cell.length_b 69.78 _cell.length_c 72.229 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3BGD _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 PISA monomeric 1 software_defined_assembly 1 PISA monomeric 1 software_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,D,E,I 1 1 B,F,G,H,J 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 ? 3 D N N ? 3 E N N ? 3 G N N ? 3 H N N # _chem_comp.formula 'C5 H4 N4 S' _chem_comp.formula_weight 152.177 _chem_comp.id PM6 _chem_comp.mon_nstd_flag . _chem_comp.name 9H-purine-6-thiol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 6-Mercaptopurine # 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 N9 C4 PM6 sing 260 n y N9 C8 PM6 sing 261 n y C4 N3 PM6 doub 262 n y C4 C5 PM6 sing 263 n y N3 C2 PM6 sing 264 n y C2 N1 PM6 doub 265 n y N1 C6 PM6 sing 266 n y C6 C5 PM6 doub 267 n y C6 S6 PM6 sing 268 n n C5 N7 PM6 sing 269 n y N7 C8 PM6 doub 270 n y N9 HN9 PM6 sing 271 n n C2 H2 PM6 sing 272 n n C8 H8 PM6 sing 273 n n S6 HS6 PM6 sing 274 n n # _atom_sites.entry_id 3BGD _atom_sites.fract_transf_matrix[1][1] 0.015901 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00768 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014331 _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] 0.015375 _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 SAH A 1 300 300 SAH SAH . D 3 PM6 A 1 301 301 PM6 PM6 . E 3 PM6 A 1 302 302 PM6 PM6 . F 2 SAH B 1 300 300 SAH SAH . G 3 PM6 B 1 301 301 PM6 PM6 . H 3 PM6 B 1 302 302 PM6 PM6 . I 4 HOH A 1 303 303 HOH HOH . I 4 HOH A 2 304 304 HOH HOH . I 4 HOH A 3 305 305 HOH HOH . I 4 HOH A 4 306 306 HOH HOH . I 4 HOH A 5 307 307 HOH HOH . I 4 HOH A 6 308 308 HOH HOH . I 4 HOH A 7 309 309 HOH HOH . I 4 HOH A 8 310 310 HOH HOH . I 4 HOH A 9 311 311 HOH HOH . I 4 HOH A 10 312 312 HOH HOH . I 4 HOH A 11 313 313 HOH HOH . I 4 HOH A 12 314 314 HOH HOH . I 4 HOH A 13 315 315 HOH HOH . I 4 HOH A 14 316 316 HOH HOH . I 4 HOH A 15 317 317 HOH HOH . I 4 HOH A 16 318 318 HOH HOH . I 4 HOH A 17 319 319 HOH HOH . I 4 HOH A 18 320 320 HOH HOH . I 4 HOH A 19 321 321 HOH HOH . I 4 HOH A 20 322 322 HOH HOH . I 4 HOH A 21 323 323 HOH HOH . I 4 HOH A 22 324 324 HOH HOH . I 4 HOH A 23 325 325 HOH HOH . I 4 HOH A 24 326 326 HOH HOH . I 4 HOH A 25 327 327 HOH HOH . I 4 HOH A 26 328 328 HOH HOH . I 4 HOH A 27 329 329 HOH HOH . I 4 HOH A 28 330 330 HOH HOH . I 4 HOH A 29 331 331 HOH HOH . I 4 HOH A 30 332 332 HOH HOH . I 4 HOH A 31 333 333 HOH HOH . I 4 HOH A 32 334 334 HOH HOH . I 4 HOH A 33 335 335 HOH HOH . I 4 HOH A 34 336 336 HOH HOH . I 4 HOH A 35 337 337 HOH HOH . I 4 HOH A 36 338 338 HOH HOH . I 4 HOH A 37 339 339 HOH HOH . I 4 HOH A 38 340 340 HOH HOH . I 4 HOH A 39 341 341 HOH HOH . I 4 HOH A 40 342 342 HOH HOH . I 4 HOH A 41 343 343 HOH HOH . I 4 HOH A 42 344 344 HOH HOH . I 4 HOH A 43 345 345 HOH HOH . I 4 HOH A 44 346 346 HOH HOH . I 4 HOH A 45 347 347 HOH HOH . I 4 HOH A 46 348 348 HOH HOH . I 4 HOH A 47 349 349 HOH HOH . I 4 HOH A 48 350 350 HOH HOH . I 4 HOH A 49 351 351 HOH HOH . I 4 HOH A 50 352 352 HOH HOH . I 4 HOH A 51 353 353 HOH HOH . I 4 HOH A 52 354 354 HOH HOH . I 4 HOH A 53 355 355 HOH HOH . I 4 HOH A 54 356 356 HOH HOH . I 4 HOH A 55 357 357 HOH HOH . I 4 HOH A 56 358 358 HOH HOH . I 4 HOH A 57 359 359 HOH HOH . I 4 HOH A 58 360 360 HOH HOH . I 4 HOH A 59 361 361 HOH HOH . I 4 HOH A 60 362 362 HOH HOH . I 4 HOH A 61 363 363 HOH HOH . I 4 HOH A 62 364 364 HOH HOH . I 4 HOH A 63 365 365 HOH HOH . I 4 HOH A 64 366 366 HOH HOH . I 4 HOH A 65 367 367 HOH HOH . I 4 HOH A 66 368 368 HOH HOH . I 4 HOH A 67 369 369 HOH HOH . I 4 HOH A 68 370 370 HOH HOH . I 4 HOH A 69 371 371 HOH HOH . I 4 HOH A 70 372 372 HOH HOH . I 4 HOH A 71 373 373 HOH HOH . I 4 HOH A 72 374 374 HOH HOH . I 4 HOH A 73 375 375 HOH HOH . I 4 HOH A 74 376 376 HOH HOH . I 4 HOH A 75 377 377 HOH HOH . I 4 HOH A 76 378 378 HOH HOH . I 4 HOH A 77 379 379 HOH HOH . I 4 HOH A 78 380 380 HOH HOH . I 4 HOH A 79 381 381 HOH HOH . I 4 HOH A 80 382 382 HOH HOH . I 4 HOH A 81 383 383 HOH HOH . I 4 HOH A 82 384 384 HOH HOH . I 4 HOH A 83 385 385 HOH HOH . I 4 HOH A 84 386 386 HOH HOH . I 4 HOH A 85 387 387 HOH HOH . I 4 HOH A 86 388 388 HOH HOH . I 4 HOH A 87 389 389 HOH HOH . I 4 HOH A 88 390 390 HOH HOH . I 4 HOH A 89 391 391 HOH HOH . I 4 HOH A 90 392 392 HOH HOH . I 4 HOH A 91 393 393 HOH HOH . I 4 HOH A 92 394 394 HOH HOH . I 4 HOH A 93 395 395 HOH HOH . I 4 HOH A 94 396 396 HOH HOH . I 4 HOH A 95 397 397 HOH HOH . I 4 HOH A 96 398 398 HOH HOH . I 4 HOH A 97 399 399 HOH HOH . I 4 HOH A 98 400 400 HOH HOH . I 4 HOH A 99 401 401 HOH HOH . I 4 HOH A 100 402 402 HOH HOH . I 4 HOH A 101 403 403 HOH HOH . I 4 HOH A 102 404 404 HOH HOH . I 4 HOH A 103 405 405 HOH HOH . I 4 HOH A 104 406 406 HOH HOH . I 4 HOH A 105 407 407 HOH HOH . I 4 HOH A 106 408 408 HOH HOH . I 4 HOH A 107 409 409 HOH HOH . I 4 HOH A 108 410 410 HOH HOH . I 4 HOH A 109 411 411 HOH HOH . I 4 HOH A 110 412 412 HOH HOH . I 4 HOH A 111 413 413 HOH HOH . I 4 HOH A 112 414 414 HOH HOH . I 4 HOH A 113 415 415 HOH HOH . I 4 HOH A 114 416 416 HOH HOH . I 4 HOH A 115 417 417 HOH HOH . I 4 HOH A 116 418 418 HOH HOH . I 4 HOH A 117 419 419 HOH HOH . I 4 HOH A 118 420 420 HOH HOH . I 4 HOH A 119 421 421 HOH HOH . I 4 HOH A 120 422 422 HOH HOH . I 4 HOH A 121 423 423 HOH HOH . I 4 HOH A 122 424 424 HOH HOH . I 4 HOH A 123 425 425 HOH HOH . I 4 HOH A 124 426 426 HOH HOH . I 4 HOH A 125 427 427 HOH HOH . I 4 HOH A 126 428 428 HOH HOH . I 4 HOH A 127 429 429 HOH HOH . I 4 HOH A 128 430 430 HOH HOH . I 4 HOH A 129 431 431 HOH HOH . I 4 HOH A 130 432 432 HOH HOH . I 4 HOH A 131 433 433 HOH HOH . I 4 HOH A 132 434 434 HOH HOH . I 4 HOH A 133 435 435 HOH HOH . I 4 HOH A 134 436 436 HOH HOH . I 4 HOH A 135 437 437 HOH HOH . I 4 HOH A 136 438 438 HOH HOH . I 4 HOH A 137 439 439 HOH HOH . I 4 HOH A 138 440 440 HOH HOH . I 4 HOH A 139 441 441 HOH HOH . I 4 HOH A 140 442 442 HOH HOH . I 4 HOH A 141 443 443 HOH HOH . I 4 HOH A 142 444 444 HOH HOH . I 4 HOH A 143 445 445 HOH HOH . I 4 HOH A 144 446 446 HOH HOH . I 4 HOH A 145 447 447 HOH HOH . I 4 HOH A 146 448 448 HOH HOH . I 4 HOH A 147 449 449 HOH HOH . I 4 HOH A 148 450 450 HOH HOH . I 4 HOH A 149 451 451 HOH HOH . J 4 HOH B 1 303 303 HOH HOH . J 4 HOH B 2 304 304 HOH HOH . J 4 HOH B 3 305 305 HOH HOH . J 4 HOH B 4 306 306 HOH HOH . J 4 HOH B 5 307 307 HOH HOH . J 4 HOH B 6 308 308 HOH HOH . J 4 HOH B 7 309 309 HOH HOH . J 4 HOH B 8 310 310 HOH HOH . J 4 HOH B 9 311 311 HOH HOH . J 4 HOH B 10 312 312 HOH HOH . J 4 HOH B 11 313 313 HOH HOH . J 4 HOH B 12 314 314 HOH HOH . J 4 HOH B 13 315 315 HOH HOH . J 4 HOH B 14 316 316 HOH HOH . J 4 HOH B 15 317 317 HOH HOH . J 4 HOH B 16 318 318 HOH HOH . J 4 HOH B 17 319 319 HOH HOH . J 4 HOH B 18 320 320 HOH HOH . J 4 HOH B 19 321 321 HOH HOH . J 4 HOH B 20 322 322 HOH HOH . J 4 HOH B 21 323 323 HOH HOH . J 4 HOH B 22 324 324 HOH HOH . J 4 HOH B 23 325 325 HOH HOH . J 4 HOH B 24 326 326 HOH HOH . J 4 HOH B 25 327 327 HOH HOH . J 4 HOH B 26 328 328 HOH HOH . J 4 HOH B 27 329 329 HOH HOH . J 4 HOH B 28 330 330 HOH HOH . J 4 HOH B 29 331 331 HOH HOH . J 4 HOH B 30 332 332 HOH HOH . J 4 HOH B 31 333 333 HOH HOH . J 4 HOH B 32 334 334 HOH HOH . J 4 HOH B 33 335 335 HOH HOH . J 4 HOH B 34 336 336 HOH HOH . J 4 HOH B 35 337 337 HOH HOH . J 4 HOH B 36 338 338 HOH HOH . J 4 HOH B 37 339 339 HOH HOH . J 4 HOH B 38 340 340 HOH HOH . J 4 HOH B 39 341 341 HOH HOH . J 4 HOH B 40 342 342 HOH HOH . J 4 HOH B 41 343 343 HOH HOH . J 4 HOH B 42 344 344 HOH HOH . J 4 HOH B 43 345 345 HOH HOH . J 4 HOH B 44 346 346 HOH HOH . J 4 HOH B 45 347 347 HOH HOH . J 4 HOH B 46 348 348 HOH HOH . J 4 HOH B 47 349 349 HOH HOH . J 4 HOH B 48 350 350 HOH HOH . J 4 HOH B 49 351 351 HOH HOH . J 4 HOH B 50 352 352 HOH HOH . J 4 HOH B 51 353 353 HOH HOH . J 4 HOH B 52 354 354 HOH HOH . J 4 HOH B 53 355 355 HOH HOH . J 4 HOH B 54 356 356 HOH HOH . J 4 HOH B 55 357 357 HOH HOH . J 4 HOH B 56 358 358 HOH HOH . J 4 HOH B 57 359 359 HOH HOH . J 4 HOH B 58 360 360 HOH HOH . J 4 HOH B 59 361 361 HOH HOH . J 4 HOH B 60 362 362 HOH HOH . J 4 HOH B 61 363 363 HOH HOH . J 4 HOH B 62 364 364 HOH HOH . J 4 HOH B 63 365 365 HOH HOH . J 4 HOH B 64 366 366 HOH HOH . J 4 HOH B 65 367 367 HOH HOH . J 4 HOH B 66 368 368 HOH HOH . J 4 HOH B 67 369 369 HOH HOH . J 4 HOH B 68 370 370 HOH HOH . J 4 HOH B 69 371 371 HOH HOH . J 4 HOH B 70 372 372 HOH HOH . J 4 HOH B 71 373 373 HOH HOH . J 4 HOH B 72 374 374 HOH HOH . J 4 HOH B 73 375 375 HOH HOH . J 4 HOH B 74 376 376 HOH HOH . J 4 HOH B 75 377 377 HOH HOH . J 4 HOH B 76 378 378 HOH HOH . J 4 HOH B 77 379 379 HOH HOH . J 4 HOH B 78 380 380 HOH HOH . J 4 HOH B 79 381 381 HOH HOH . J 4 HOH B 80 382 382 HOH HOH . J 4 HOH B 81 383 383 HOH HOH . J 4 HOH B 82 384 384 HOH HOH . J 4 HOH B 83 385 385 HOH HOH . J 4 HOH B 84 386 386 HOH HOH . J 4 HOH B 85 387 387 HOH HOH . J 4 HOH B 86 388 388 HOH HOH . J 4 HOH B 87 389 389 HOH HOH . J 4 HOH B 88 390 390 HOH HOH . J 4 HOH B 89 391 391 HOH HOH . J 4 HOH B 90 392 392 HOH HOH . J 4 HOH B 91 393 393 HOH HOH . J 4 HOH B 92 394 394 HOH HOH . J 4 HOH B 93 395 395 HOH HOH . J 4 HOH B 94 396 396 HOH HOH . J 4 HOH B 95 397 397 HOH HOH . J 4 HOH B 96 398 398 HOH HOH . J 4 HOH B 97 399 399 HOH HOH . J 4 HOH B 98 400 400 HOH HOH . J 4 HOH B 99 401 401 HOH HOH . J 4 HOH B 100 402 402 HOH HOH . J 4 HOH B 101 403 403 HOH HOH . J 4 HOH B 102 404 404 HOH HOH . J 4 HOH B 103 405 405 HOH HOH . J 4 HOH B 104 406 406 HOH HOH . J 4 HOH B 105 407 407 HOH HOH . J 4 HOH B 106 408 408 HOH HOH . J 4 HOH B 107 409 409 HOH HOH . J 4 HOH B 108 410 410 HOH HOH . J 4 HOH B 109 411 411 HOH HOH . J 4 HOH B 110 412 412 HOH HOH . J 4 HOH B 111 413 413 HOH HOH . J 4 HOH B 112 414 414 HOH HOH . J 4 HOH B 113 415 415 HOH HOH . J 4 HOH B 114 416 416 HOH HOH . J 4 HOH B 115 417 417 HOH HOH . J 4 HOH B 116 418 418 HOH HOH . J 4 HOH B 117 419 419 HOH HOH . J 4 HOH B 118 420 420 HOH HOH . J 4 HOH B 119 421 421 HOH HOH . J 4 HOH B 120 422 422 HOH HOH . J 4 HOH B 121 423 423 HOH HOH . J 4 HOH B 122 424 424 HOH HOH . J 4 HOH B 123 425 425 HOH HOH . J 4 HOH B 124 426 426 HOH HOH . J 4 HOH B 125 427 427 HOH HOH . J 4 HOH B 126 428 428 HOH HOH . J 4 HOH B 127 429 429 HOH HOH . J 4 HOH B 128 430 430 HOH HOH . J 4 HOH B 129 431 431 HOH HOH . J 4 HOH B 130 432 432 HOH HOH . J 4 HOH B 131 433 433 HOH HOH . J 4 HOH B 132 434 434 HOH HOH . J 4 HOH B 133 435 435 HOH HOH . J 4 HOH B 134 436 436 HOH HOH . J 4 HOH B 135 437 437 HOH HOH . J 4 HOH B 136 438 438 HOH HOH . J 4 HOH B 137 439 439 HOH HOH . J 4 HOH B 138 440 440 HOH HOH . J 4 HOH B 139 441 441 HOH HOH . J 4 HOH B 140 442 442 HOH HOH . J 4 HOH B 141 443 443 HOH HOH . J 4 HOH B 142 444 444 HOH HOH . J 4 HOH B 143 445 445 HOH HOH . J 4 HOH B 144 446 446 HOH HOH . J 4 HOH B 145 447 447 HOH HOH . J 4 HOH B 146 448 448 HOH HOH . J 4 HOH B 147 449 449 HOH HOH . J 4 HOH B 148 450 450 HOH HOH . J 4 HOH B 149 451 451 HOH HOH . J 4 HOH B 150 452 452 HOH HOH . J 4 HOH B 151 453 453 HOH HOH . J 4 HOH B 152 454 454 HOH HOH . J 4 HOH B 153 455 455 HOH HOH . J 4 HOH B 154 456 456 HOH HOH . J 4 HOH B 155 457 457 HOH HOH . J 4 HOH B 156 458 458 HOH HOH . J 4 HOH B 157 459 459 HOH HOH . J 4 HOH B 158 460 460 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 N9 PM6 . . . E 3 10.151 34.291 33.712 0.5 19.46 ? N9 PM6 302 A 1 HETATM 2 C C4 PM6 . . . E 3 10.032 34.916 34.884 0.5 19.78 ? C4 PM6 302 A 1 HETATM 3 N N3 PM6 . . . E 3 10.368 36.15 35.308 0.5 19.13 ? N3 PM6 302 A 1 HETATM 4 C C2 PM6 . . . E 3 10.114 36.503 36.561 0.5 19.79 ? C2 PM6 302 A 1 HETATM 5 N N1 PM6 . . . E 3 9.534 35.675 37.424 0.5 19.32 ? N1 PM6 302 A 1 HETATM 6 C C6 PM6 . . . E 3 9.176 34.433 37.061 0.5 19.56 ? C6 PM6 302 A 1 HETATM 7 C C5 PM6 . . . E 3 9.422 34.023 35.765 0.5 19.56 ? C5 PM6 302 A 1 HETATM 8 N N7 PM6 . . . E 3 9.194 32.885 35.115 0.5 19.5 ? N7 PM6 302 A 1 HETATM 9 C C8 PM6 . . . E 3 9.638 33.056 33.858 0.5 19.57 ? C8 PM6 302 A 1 HETATM 10 S S6 PM6 . . . E 3 8.397 33.339 38.188 0.5 19.38 ? S6 PM6 302 A 1 # _model_server_stats.io_time_ms 71 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 334 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 10 #