data_5DUS # _model_server_result.job_id 4E8wKxyYFoaknceewK2Uag _model_server_result.datetime_utc '2024-11-22 01:30:09' _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 5dus # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5DUS # _exptl.entry_id 5DUS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 559.316 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ADENOSINE-5-DIPHOSPHORIBOSE _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 5DUS _cell.length_a 41.798 _cell.length_b 120.807 _cell.length_c 67.659 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DUS _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C15 H23 N5 O14 P2' _chem_comp.formula_weight 559.316 _chem_comp.id APR _chem_comp.mon_nstd_flag . _chem_comp.name ADENOSINE-5-DIPHOSPHORIBOSE _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 N1 C2 APR sing 13 n y N1 C6 APR doub 14 n y C2 N3 APR doub 15 n y C2 H2 APR sing 16 n n N3 C4 APR sing 17 n y C4 C5 APR doub 18 n y C4 N9 APR sing 19 n y C5 C6 APR sing 20 n y C5 N7 APR sing 21 n y C6 N6 APR sing 22 n n N6 H61 APR sing 23 n n N6 H62 APR sing 24 n n N7 C8 APR doub 25 n y C8 N9 APR sing 26 n y C8 H8 APR sing 27 n n N9 C1' APR sing 28 n n C1' C2' APR sing 29 n n C1' O4' APR sing 30 n n C1' "H'1" APR sing 31 n n C2' O2' APR sing 32 n n C2' C3' APR sing 33 n n C2' "H'2" APR sing 34 n n O2' "HO'2" APR sing 35 n n C3' O3' APR sing 36 n n C3' C4' APR sing 37 n n C3' "H'3" APR sing 38 n n O3' "HO'3" APR sing 39 n n O4' C4' APR sing 40 n n C4' C5' APR sing 41 n n C4' "H'4" APR sing 42 n n C5' O5' APR sing 43 n n C5' "H5'1" APR sing 44 n n C5' "H5'2" APR sing 45 n n O5' PA APR sing 46 n n PA O1A APR doub 47 n n PA O2A APR sing 48 n n PA O3A APR sing 49 n n O2A HOA2 APR sing 50 n n O3A PB APR sing 51 n n PB O1B APR doub 52 n n PB O2B APR sing 53 n n PB O5D APR sing 54 n n O2B HOB2 APR sing 55 n n O5D C5D APR sing 56 n n C5D C4D APR sing 57 n n C5D H5R1 APR sing 58 n n C5D H5R2 APR sing 59 n n O4D C1D APR sing 60 n n O4D C4D APR sing 61 n n O1D C1D APR sing 62 n n O1D HOR1 APR sing 63 n n C1D C2D APR sing 64 n n C1D "HR'1" APR sing 65 n n O2D C2D APR sing 66 n n O2D HOR2 APR sing 67 n n C2D C3D APR sing 68 n n C2D "HR'2" APR sing 69 n n O3D C3D APR sing 70 n n O3D HOR3 APR sing 71 n n C3D C4D APR sing 72 n n C3D "HR'3" APR sing 73 n n C4D "HR'4" APR sing 74 n n # _atom_sites.entry_id 5DUS _atom_sites.fract_transf_matrix[1][1] 0.023925 _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] 0.008278 _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] 0.01478 _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 APR A 1 201 1 APR APR . C 3 SO4 A 1 202 1 SO4 SO4 . D 3 SO4 A 1 203 2 SO4 SO4 . E 3 SO4 A 1 204 3 SO4 SO4 . F 4 GOL A 1 205 1 GOL GOL . G 4 GOL A 1 206 2 GOL GOL . H 5 HOH A 1 301 180 HOH HOH . H 5 HOH A 2 302 138 HOH HOH . H 5 HOH A 3 303 162 HOH HOH . H 5 HOH A 4 304 68 HOH HOH . H 5 HOH A 5 305 61 HOH HOH . H 5 HOH A 6 306 139 HOH HOH . H 5 HOH A 7 307 148 HOH HOH . H 5 HOH A 8 308 90 HOH HOH . H 5 HOH A 9 309 186 HOH HOH . H 5 HOH A 10 310 172 HOH HOH . H 5 HOH A 11 311 93 HOH HOH . H 5 HOH A 12 312 107 HOH HOH . H 5 HOH A 13 313 121 HOH HOH . H 5 HOH A 14 314 62 HOH HOH . H 5 HOH A 15 315 67 HOH HOH . H 5 HOH A 16 316 77 HOH HOH . H 5 HOH A 17 317 19 HOH HOH . H 5 HOH A 18 318 51 HOH HOH . H 5 HOH A 19 319 40 HOH HOH . H 5 HOH A 20 320 4 HOH HOH . H 5 HOH A 21 321 73 HOH HOH . H 5 HOH A 22 322 187 HOH HOH . H 5 HOH A 23 323 159 HOH HOH . H 5 HOH A 24 324 188 HOH HOH . H 5 HOH A 25 325 111 HOH HOH . H 5 HOH A 26 326 38 HOH HOH . H 5 HOH A 27 327 37 HOH HOH . H 5 HOH A 28 328 3 HOH HOH . H 5 HOH A 29 329 102 HOH HOH . H 5 HOH A 30 330 15 HOH HOH . H 5 HOH A 31 331 27 HOH HOH . H 5 HOH A 32 332 25 HOH HOH . H 5 HOH A 33 333 144 HOH HOH . H 5 HOH A 34 334 136 HOH HOH . H 5 HOH A 35 335 6 HOH HOH . H 5 HOH A 36 336 13 HOH HOH . H 5 HOH A 37 337 49 HOH HOH . H 5 HOH A 38 338 145 HOH HOH . H 5 HOH A 39 339 43 HOH HOH . H 5 HOH A 40 340 115 HOH HOH . H 5 HOH A 41 341 80 HOH HOH . H 5 HOH A 42 342 72 HOH HOH . H 5 HOH A 43 343 14 HOH HOH . H 5 HOH A 44 344 11 HOH HOH . H 5 HOH A 45 345 42 HOH HOH . H 5 HOH A 46 346 64 HOH HOH . H 5 HOH A 47 347 10 HOH HOH . H 5 HOH A 48 348 58 HOH HOH . H 5 HOH A 49 349 53 HOH HOH . H 5 HOH A 50 350 169 HOH HOH . H 5 HOH A 51 351 91 HOH HOH . H 5 HOH A 52 352 79 HOH HOH . H 5 HOH A 53 353 32 HOH HOH . H 5 HOH A 54 354 29 HOH HOH . H 5 HOH A 55 355 12 HOH HOH . H 5 HOH A 56 356 7 HOH HOH . H 5 HOH A 57 357 150 HOH HOH . H 5 HOH A 58 358 86 HOH HOH . H 5 HOH A 59 359 69 HOH HOH . H 5 HOH A 60 360 170 HOH HOH . H 5 HOH A 61 361 56 HOH HOH . H 5 HOH A 62 362 160 HOH HOH . H 5 HOH A 63 363 21 HOH HOH . H 5 HOH A 64 364 5 HOH HOH . H 5 HOH A 65 365 108 HOH HOH . H 5 HOH A 66 366 66 HOH HOH . H 5 HOH A 67 367 153 HOH HOH . H 5 HOH A 68 368 168 HOH HOH . H 5 HOH A 69 369 57 HOH HOH . H 5 HOH A 70 370 70 HOH HOH . H 5 HOH A 71 371 171 HOH HOH . H 5 HOH A 72 372 9 HOH HOH . H 5 HOH A 73 373 120 HOH HOH . H 5 HOH A 74 374 33 HOH HOH . H 5 HOH A 75 375 48 HOH HOH . H 5 HOH A 76 376 125 HOH HOH . H 5 HOH A 77 377 179 HOH HOH . H 5 HOH A 78 378 47 HOH HOH . H 5 HOH A 79 379 55 HOH HOH . H 5 HOH A 80 380 26 HOH HOH . H 5 HOH A 81 381 52 HOH HOH . H 5 HOH A 82 382 92 HOH HOH . H 5 HOH A 83 383 54 HOH HOH . H 5 HOH A 84 384 1 HOH HOH . H 5 HOH A 85 385 130 HOH HOH . H 5 HOH A 86 386 185 HOH HOH . H 5 HOH A 87 387 98 HOH HOH . H 5 HOH A 88 388 2 HOH HOH . H 5 HOH A 89 389 34 HOH HOH . H 5 HOH A 90 390 44 HOH HOH . H 5 HOH A 91 391 89 HOH HOH . H 5 HOH A 92 392 50 HOH HOH . H 5 HOH A 93 393 18 HOH HOH . H 5 HOH A 94 394 109 HOH HOH . H 5 HOH A 95 395 20 HOH HOH . H 5 HOH A 96 396 118 HOH HOH . H 5 HOH A 97 397 39 HOH HOH . H 5 HOH A 98 398 65 HOH HOH . H 5 HOH A 99 399 189 HOH HOH . H 5 HOH A 100 400 17 HOH HOH . H 5 HOH A 101 401 30 HOH HOH . H 5 HOH A 102 402 22 HOH HOH . H 5 HOH A 103 403 165 HOH HOH . H 5 HOH A 104 404 128 HOH HOH . H 5 HOH A 105 405 140 HOH HOH . H 5 HOH A 106 406 60 HOH HOH . H 5 HOH A 107 407 146 HOH HOH . H 5 HOH A 108 408 101 HOH HOH . H 5 HOH A 109 409 16 HOH HOH . H 5 HOH A 110 410 175 HOH HOH . H 5 HOH A 111 411 31 HOH HOH . H 5 HOH A 112 412 78 HOH HOH . H 5 HOH A 113 413 59 HOH HOH . H 5 HOH A 114 414 99 HOH HOH . H 5 HOH A 115 415 88 HOH HOH . H 5 HOH A 116 416 163 HOH HOH . H 5 HOH A 117 417 112 HOH HOH . H 5 HOH A 118 418 36 HOH HOH . H 5 HOH A 119 419 178 HOH HOH . H 5 HOH A 120 420 63 HOH HOH . H 5 HOH A 121 421 8 HOH HOH . H 5 HOH A 122 422 137 HOH HOH . H 5 HOH A 123 423 127 HOH HOH . H 5 HOH A 124 424 195 HOH HOH . H 5 HOH A 125 425 35 HOH HOH . H 5 HOH A 126 426 174 HOH HOH . H 5 HOH A 127 427 24 HOH HOH . H 5 HOH A 128 428 176 HOH HOH . H 5 HOH A 129 429 177 HOH HOH . H 5 HOH A 130 430 96 HOH HOH . H 5 HOH A 131 431 142 HOH HOH . H 5 HOH A 132 432 28 HOH HOH . H 5 HOH A 133 433 81 HOH HOH . H 5 HOH A 134 434 129 HOH HOH . H 5 HOH A 135 435 76 HOH HOH . H 5 HOH A 136 436 147 HOH HOH . H 5 HOH A 137 437 192 HOH HOH . H 5 HOH A 138 438 41 HOH HOH . H 5 HOH A 139 439 191 HOH HOH . H 5 HOH A 140 440 141 HOH HOH . H 5 HOH A 141 441 122 HOH HOH . H 5 HOH A 142 442 181 HOH HOH . H 5 HOH A 143 443 104 HOH HOH . H 5 HOH A 144 444 106 HOH HOH . H 5 HOH A 145 445 134 HOH HOH . H 5 HOH A 146 446 154 HOH HOH . H 5 HOH A 147 447 182 HOH HOH . H 5 HOH A 148 448 152 HOH HOH . H 5 HOH A 149 449 161 HOH HOH . H 5 HOH A 150 450 105 HOH HOH . H 5 HOH A 151 451 45 HOH HOH . H 5 HOH A 152 452 124 HOH HOH . H 5 HOH A 153 453 82 HOH HOH . H 5 HOH A 154 454 123 HOH HOH . H 5 HOH A 155 455 119 HOH HOH . H 5 HOH A 156 456 155 HOH HOH . H 5 HOH A 157 457 135 HOH HOH . H 5 HOH A 158 458 85 HOH HOH . H 5 HOH A 159 459 97 HOH HOH . H 5 HOH A 160 460 84 HOH HOH . H 5 HOH A 161 461 151 HOH HOH . H 5 HOH A 162 462 184 HOH HOH . H 5 HOH A 163 463 190 HOH HOH . H 5 HOH A 164 464 71 HOH HOH . H 5 HOH A 165 465 164 HOH HOH . H 5 HOH A 166 466 114 HOH HOH . H 5 HOH A 167 467 113 HOH HOH . H 5 HOH A 168 468 74 HOH HOH . H 5 HOH A 169 469 87 HOH HOH . H 5 HOH A 170 470 110 HOH HOH . H 5 HOH A 171 471 156 HOH HOH . H 5 HOH A 172 472 143 HOH HOH . H 5 HOH A 173 473 117 HOH HOH . H 5 HOH A 174 474 173 HOH HOH . H 5 HOH A 175 475 167 HOH HOH . H 5 HOH A 176 476 103 HOH HOH . H 5 HOH A 177 477 46 HOH HOH . H 5 HOH A 178 478 23 HOH HOH . H 5 HOH A 179 479 100 HOH HOH . H 5 HOH A 180 480 133 HOH HOH . H 5 HOH A 181 481 116 HOH HOH . H 5 HOH A 182 482 166 HOH HOH . H 5 HOH A 183 483 183 HOH HOH . H 5 HOH A 184 484 132 HOH HOH . H 5 HOH A 185 485 131 HOH HOH . H 5 HOH A 186 486 157 HOH HOH . H 5 HOH A 187 487 75 HOH HOH . H 5 HOH A 188 488 194 HOH HOH . H 5 HOH A 189 489 193 HOH HOH . H 5 HOH A 190 490 95 HOH HOH . H 5 HOH A 191 491 94 HOH HOH . H 5 HOH A 192 492 83 HOH HOH . H 5 HOH A 193 493 158 HOH HOH . H 5 HOH A 194 494 126 HOH HOH . H 5 HOH A 195 495 149 HOH HOH . H 5 HOH A 196 496 196 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 N1 APR . . . B 2 4.327 19.014 75.598 1 13.01 ? N1 APR 201 A 1 HETATM 2 C C2 APR . . . B 2 3.905 17.875 74.969 1 15.44 ? C2 APR 201 A 1 HETATM 3 N N3 APR . . . B 2 2.922 17.924 73.999 1 12.3 ? N3 APR 201 A 1 HETATM 4 C C4 APR . . . B 2 2.37 19.136 73.672 1 11.26 ? C4 APR 201 A 1 HETATM 5 C C5 APR . . . B 2 2.794 20.259 74.295 1 10.73 ? C5 APR 201 A 1 HETATM 6 C C6 APR . . . B 2 3.776 20.206 75.272 1 12.22 ? C6 APR 201 A 1 HETATM 7 N N6 APR . . . B 2 4.313 21.304 76.001 1 14.86 ? N6 APR 201 A 1 HETATM 8 N N7 APR . . . B 2 2.098 21.322 73.802 1 13.16 ? N7 APR 201 A 1 HETATM 9 C C8 APR . . . B 2 1.242 20.849 72.858 1 13.24 ? C8 APR 201 A 1 HETATM 10 N N9 APR . . . B 2 1.393 19.502 72.769 1 11.57 ? N9 APR 201 A 1 HETATM 11 C C1' APR . . . B 2 0.791 18.508 71.983 1 11.44 ? C1' APR 201 A 1 HETATM 12 C C2' APR . . . B 2 -0.2 18.977 71.244 1 12.82 ? C2' APR 201 A 1 HETATM 13 O O2' APR . . . B 2 -1.477 18.937 71.891 1 16.73 ? O2' APR 201 A 1 HETATM 14 C C3' APR . . . B 2 -0.198 18.015 69.922 1 12.62 ? C3' APR 201 A 1 HETATM 15 O O3' APR . . . B 2 -0.824 16.762 70.282 1 15.54 ? O3' APR 201 A 1 HETATM 16 O O4' APR . . . B 2 1.883 18.159 70.911 1 12.21 ? O4' APR 201 A 1 HETATM 17 C C4' APR . . . B 2 1.124 17.816 69.63 1 11.42 ? C4' APR 201 A 1 HETATM 18 C C5' APR . . . B 2 1.648 18.734 68.498 1 13.11 ? C5' APR 201 A 1 HETATM 19 O O5' APR . . . B 2 0.99 19.981 68.783 1 20.28 ? O5' APR 201 A 1 HETATM 20 P PA APR . . . B 2 1.216 21.342 68.022 1 9.84 ? PA APR 201 A 1 HETATM 21 O O1A APR . . . B 2 -0.173 21.907 67.73 1 15.22 ? O1A APR 201 A 1 HETATM 22 O O2A APR . . . B 2 2.049 22.282 68.881 1 14.39 ? O2A APR 201 A 1 HETATM 23 O O3A APR . . . B 2 2.002 21.021 66.713 1 8.61 ? O3A APR 201 A 1 HETATM 24 P PB APR . . . B 2 1.586 20.799 65.18 1 9.19 ? PB APR 201 A 1 HETATM 25 O O1B APR . . . B 2 2.827 20.237 64.486 1 9.35 ? O1B APR 201 A 1 HETATM 26 O O2B APR . . . B 2 0.305 19.975 65.103 1 8.96 ? O2B APR 201 A 1 HETATM 27 O O5D APR . . . B 2 1.26 22.238 64.63 1 9.6 ? O5D APR 201 A 1 HETATM 28 C C5D APR . . . B 2 2.344 23.119 64.274 1 9.12 ? C5D APR 201 A 1 HETATM 29 O O4D APR . . . B 2 1.258 24.965 65.56 1 11.19 ? O4D APR 201 A 1 HETATM 30 O O1D APR . . . B 2 2.034 26.176 67.27 1 12.18 ? O1D APR 201 A 1 HETATM 31 C C1D APR . . . B 2 1.83 26.114 65.874 1 12.62 ? C1D APR 201 A 1 HETATM 32 O O2D APR . . . B 2 3.734 27.331 65.069 1 12.51 ? O2D APR 201 A 1 HETATM 33 C C2D APR . . . B 2 3.19 26.059 65.166 1 10.67 ? C2D APR 201 A 1 HETATM 34 O O3D APR . . . B 2 2.172 26.547 62.977 1 11.58 ? O3D APR 201 A 1 HETATM 35 C C3D APR . . . B 2 2.773 25.465 63.823 1 10.9 ? C3D APR 201 A 1 HETATM 36 C C4D APR . . . B 2 1.834 24.54 64.145 1 10.89 ? C4D APR 201 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 256 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 36 #