data_5TBV # _model_server_result.job_id e9IwttQi1zJyXTgZbVQKHg _model_server_result.datetime_utc '2024-11-13 12:36:16' _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 5tbv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 5TBV # _exptl.entry_id 5TBV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 266.253 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "'2-(4-AMINO-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-HYDROXYMETHYL-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 90 _cell.entry_id 5TBV _cell.length_a 91.981 _cell.length_b 91.981 _cell.length_c 91.981 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TBV _symmetry.cell_setting ? _symmetry.Int_Tables_number 198 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 3' # _pdbx_struct_assembly.method_details PISA _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,E _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' 8_544 -z,x-1/2,-y-1/2 0 0 -1 1 0 0 0 -1 0 0 -45.9905 -45.9905 3 'crystal symmetry operation' 11_545 y+1/2,-z-1/2,-x 0 1 0 0 0 -1 -1 0 0 45.9905 -45.9905 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 'C11 H14 N4 O4' _chem_comp.formula_weight 266.253 _chem_comp.id TBN _chem_comp.mon_nstd_flag n _chem_comp.name "'2-(4-AMINO-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-3,4-DIOL" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 7-DEAZAADENOSINE # 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 O5' C5' TBN sing 303 n n O5' H5' TBN sing 304 n n C5' C4' TBN sing 305 n n C5' "H5'1" TBN sing 306 n n C5' "H5'2" TBN sing 307 n n C4' O4' TBN sing 308 n n C4' C3' TBN sing 309 n n C4' H4' TBN sing 310 n n O4' C1' TBN sing 311 n n C1' N9 TBN sing 312 n n C1' C2' TBN sing 313 n n C1' H1' TBN sing 314 n n N9 C8 TBN sing 315 n y N9 C4 TBN sing 316 n y C8 C7 TBN doub 317 n y C8 H8 TBN sing 318 n n C7 C5 TBN sing 319 n y C7 H7 TBN sing 320 n n C5 C6 TBN doub 321 n y C5 C4 TBN sing 322 n y C6 N1 TBN sing 323 n y C6 N6 TBN sing 324 n n N1 C2 TBN doub 325 n y C2 N3 TBN sing 326 n y C2 H2 TBN sing 327 n n N3 C4 TBN doub 328 n y N6 HN61 TBN sing 329 n n N6 HN62 TBN sing 330 n n C2' O2' TBN sing 331 n n C2' C3' TBN sing 332 n n C2' H2' TBN sing 333 n n O2' H1 TBN sing 334 n n C3' O3' TBN sing 335 n n C3' H3' TBN sing 336 n n O3' H3 TBN sing 337 n n # _atom_sites.entry_id 5TBV _atom_sites.fract_transf_matrix[1][1] 0.010872 _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] 0.010872 _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] 0.010872 _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 TBN A 1 301 1 TBN TBN . C 3 SO4 A 1 302 1 SO4 SO4 . D 4 DMS A 1 303 1 DMS DMS . E 5 HOH A 1 401 68 HOH HOH . E 5 HOH A 2 402 34 HOH HOH . E 5 HOH A 3 403 48 HOH HOH . E 5 HOH A 4 404 105 HOH HOH . E 5 HOH A 5 405 106 HOH HOH . E 5 HOH A 6 406 36 HOH HOH . E 5 HOH A 7 407 142 HOH HOH . E 5 HOH A 8 408 109 HOH HOH . E 5 HOH A 9 409 94 HOH HOH . E 5 HOH A 10 410 127 HOH HOH . E 5 HOH A 11 411 75 HOH HOH . E 5 HOH A 12 412 133 HOH HOH . E 5 HOH A 13 413 38 HOH HOH . E 5 HOH A 14 414 92 HOH HOH . E 5 HOH A 15 415 108 HOH HOH . E 5 HOH A 16 416 41 HOH HOH . E 5 HOH A 17 417 42 HOH HOH . E 5 HOH A 18 418 65 HOH HOH . E 5 HOH A 19 419 72 HOH HOH . E 5 HOH A 20 420 44 HOH HOH . E 5 HOH A 21 421 122 HOH HOH . E 5 HOH A 22 422 84 HOH HOH . E 5 HOH A 23 423 97 HOH HOH . E 5 HOH A 24 424 30 HOH HOH . E 5 HOH A 25 425 6 HOH HOH . E 5 HOH A 26 426 3 HOH HOH . E 5 HOH A 27 427 40 HOH HOH . E 5 HOH A 28 428 12 HOH HOH . E 5 HOH A 29 429 22 HOH HOH . E 5 HOH A 30 430 2 HOH HOH . E 5 HOH A 31 431 70 HOH HOH . E 5 HOH A 32 432 35 HOH HOH . E 5 HOH A 33 433 49 HOH HOH . E 5 HOH A 34 434 19 HOH HOH . E 5 HOH A 35 435 60 HOH HOH . E 5 HOH A 36 436 17 HOH HOH . E 5 HOH A 37 437 46 HOH HOH . E 5 HOH A 38 438 7 HOH HOH . E 5 HOH A 39 439 1 HOH HOH . E 5 HOH A 40 440 28 HOH HOH . E 5 HOH A 41 441 45 HOH HOH . E 5 HOH A 42 442 138 HOH HOH . E 5 HOH A 43 443 27 HOH HOH . E 5 HOH A 44 444 47 HOH HOH . E 5 HOH A 45 445 8 HOH HOH . E 5 HOH A 46 446 23 HOH HOH . E 5 HOH A 47 447 132 HOH HOH . E 5 HOH A 48 448 93 HOH HOH . E 5 HOH A 49 449 10 HOH HOH . E 5 HOH A 50 450 62 HOH HOH . E 5 HOH A 51 451 4 HOH HOH . E 5 HOH A 52 452 135 HOH HOH . E 5 HOH A 53 453 21 HOH HOH . E 5 HOH A 54 454 20 HOH HOH . E 5 HOH A 55 455 78 HOH HOH . E 5 HOH A 56 456 76 HOH HOH . E 5 HOH A 57 457 113 HOH HOH . E 5 HOH A 58 458 59 HOH HOH . E 5 HOH A 59 459 25 HOH HOH . E 5 HOH A 60 460 58 HOH HOH . E 5 HOH A 61 461 32 HOH HOH . E 5 HOH A 62 462 116 HOH HOH . E 5 HOH A 63 463 55 HOH HOH . E 5 HOH A 64 464 14 HOH HOH . E 5 HOH A 65 465 53 HOH HOH . E 5 HOH A 66 466 31 HOH HOH . E 5 HOH A 67 467 18 HOH HOH . E 5 HOH A 68 468 50 HOH HOH . E 5 HOH A 69 469 80 HOH HOH . E 5 HOH A 70 470 52 HOH HOH . E 5 HOH A 71 471 95 HOH HOH . E 5 HOH A 72 472 29 HOH HOH . E 5 HOH A 73 473 128 HOH HOH . E 5 HOH A 74 474 129 HOH HOH . E 5 HOH A 75 475 114 HOH HOH . E 5 HOH A 76 476 61 HOH HOH . E 5 HOH A 77 477 98 HOH HOH . E 5 HOH A 78 478 39 HOH HOH . E 5 HOH A 79 479 9 HOH HOH . E 5 HOH A 80 480 81 HOH HOH . E 5 HOH A 81 481 66 HOH HOH . E 5 HOH A 82 482 101 HOH HOH . E 5 HOH A 83 483 15 HOH HOH . E 5 HOH A 84 484 90 HOH HOH . E 5 HOH A 85 485 33 HOH HOH . E 5 HOH A 86 486 16 HOH HOH . E 5 HOH A 87 487 56 HOH HOH . E 5 HOH A 88 488 139 HOH HOH . E 5 HOH A 89 489 26 HOH HOH . E 5 HOH A 90 490 51 HOH HOH . E 5 HOH A 91 491 83 HOH HOH . E 5 HOH A 92 492 130 HOH HOH . E 5 HOH A 93 493 120 HOH HOH . E 5 HOH A 94 494 43 HOH HOH . E 5 HOH A 95 495 13 HOH HOH . E 5 HOH A 96 496 5 HOH HOH . E 5 HOH A 97 497 54 HOH HOH . E 5 HOH A 98 498 110 HOH HOH . E 5 HOH A 99 499 140 HOH HOH . E 5 HOH A 100 500 11 HOH HOH . E 5 HOH A 101 501 64 HOH HOH . E 5 HOH A 102 502 37 HOH HOH . E 5 HOH A 103 503 99 HOH HOH . E 5 HOH A 104 504 73 HOH HOH . E 5 HOH A 105 505 88 HOH HOH . E 5 HOH A 106 506 125 HOH HOH . E 5 HOH A 107 507 107 HOH HOH . E 5 HOH A 108 508 77 HOH HOH . E 5 HOH A 109 509 82 HOH HOH . E 5 HOH A 110 510 63 HOH HOH . E 5 HOH A 111 511 67 HOH HOH . E 5 HOH A 112 512 103 HOH HOH . E 5 HOH A 113 513 87 HOH HOH . E 5 HOH A 114 514 96 HOH HOH . E 5 HOH A 115 515 24 HOH HOH . E 5 HOH A 116 516 115 HOH HOH . E 5 HOH A 117 517 74 HOH HOH . E 5 HOH A 118 518 119 HOH HOH . E 5 HOH A 119 519 69 HOH HOH . E 5 HOH A 120 520 112 HOH HOH . E 5 HOH A 121 521 134 HOH HOH . E 5 HOH A 122 522 121 HOH HOH . E 5 HOH A 123 523 117 HOH HOH . E 5 HOH A 124 524 123 HOH HOH . E 5 HOH A 125 525 104 HOH HOH . E 5 HOH A 126 526 102 HOH HOH . E 5 HOH A 127 527 131 HOH HOH . E 5 HOH A 128 528 111 HOH HOH . E 5 HOH A 129 529 57 HOH HOH . E 5 HOH A 130 530 137 HOH HOH . E 5 HOH A 131 531 91 HOH HOH . E 5 HOH A 132 532 89 HOH HOH . E 5 HOH A 133 533 100 HOH HOH . E 5 HOH A 134 534 118 HOH HOH . E 5 HOH A 135 535 141 HOH HOH . E 5 HOH A 136 536 136 HOH HOH . E 5 HOH A 137 537 71 HOH HOH . E 5 HOH A 138 538 79 HOH HOH . E 5 HOH A 139 539 126 HOH HOH . E 5 HOH A 140 540 124 HOH HOH . E 5 HOH A 141 541 86 HOH HOH . E 5 HOH A 142 542 85 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 O O5' TBN . . . B 2 16.641 -31.894 10.236 1 36.3 ? O5' TBN 301 A 1 HETATM 2 C C5' TBN . . . B 2 15.51 -32.373 9.543 1 35.72 ? C5' TBN 301 A 1 HETATM 3 C C4' TBN . . . B 2 14.256 -31.558 9.84 1 34.59 ? C4' TBN 301 A 1 HETATM 4 O O4' TBN . . . B 2 14.491 -30.223 9.523 1 32.9 ? O4' TBN 301 A 1 HETATM 5 C C1' TBN . . . B 2 14.162 -29.966 8.196 1 31.38 ? C1' TBN 301 A 1 HETATM 6 N N9 TBN . . . B 2 15.42 -29.8 7.453 1 30.45 ? N9 TBN 301 A 1 HETATM 7 C C8 TBN . . . B 2 16.452 -29.164 8.004 1 30.12 ? C8 TBN 301 A 1 HETATM 8 C C7 TBN . . . B 2 17.533 -29.109 7.19 1 27.76 ? C7 TBN 301 A 1 HETATM 9 C C5 TBN . . . B 2 17.107 -29.779 6.035 1 26.98 ? C5 TBN 301 A 1 HETATM 10 C C6 TBN . . . B 2 17.741 -30.119 4.732 1 25 ? C6 TBN 301 A 1 HETATM 11 N N1 TBN . . . B 2 17.016 -30.793 3.851 1 26.58 ? N1 TBN 301 A 1 HETATM 12 C C2 TBN . . . B 2 15.777 -31.147 4.134 1 25.9 ? C2 TBN 301 A 1 HETATM 13 N N3 TBN . . . B 2 15.146 -30.867 5.26 1 25.89 ? N3 TBN 301 A 1 HETATM 14 C C4 TBN . . . B 2 15.738 -30.206 6.238 1 27.08 ? C4 TBN 301 A 1 HETATM 15 N N6 TBN . . . B 2 19.011 -29.791 4.439 1 24.24 ? N6 TBN 301 A 1 HETATM 16 C C2' TBN . . . B 2 13.292 -31.127 7.745 1 32.37 ? C2' TBN 301 A 1 HETATM 17 O O2' TBN . . . B 2 12.134 -30.625 7.212 1 31.12 ? O2' TBN 301 A 1 HETATM 18 C C3' TBN . . . B 2 13.091 -31.988 8.972 1 37.56 ? C3' TBN 301 A 1 HETATM 19 O O3' TBN . . . B 2 11.843 -31.809 9.607 1 53.98 ? O3' TBN 301 A 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 19 #