data_3V8P # _model_server_result.job_id mmjmfYbPxu_HVT1axGqgLg _model_server_result.datetime_utc '2024-11-13 17:43:56' _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 3v8p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 3V8P # _exptl.entry_id 3V8P _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 709.492 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-[6-azanyl-9-[(2R,3R,4S,5R)-5-[[(azanylidene-$l^{4}-azanylidene)amino]methyl]-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]sulfanyl-N-[[(2R,3S,4R,5R)-5-(6-azanyl-8-bromanyl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl]ethanamide _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 3V8P _cell.length_a 62.95 _cell.length_b 75.64 _cell.length_c 118.76 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3V8P _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 ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_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 1,2,3,4 # 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 62.95 0 0 3 'crystal symmetry operation' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 62.95 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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C22 H25 Br N14 O7 S' _chem_comp.formula_weight 709.492 _chem_comp.id ZNB _chem_comp.mon_nstd_flag . _chem_comp.name 2-[6-azanyl-9-[(2R,3R,4S,5R)-5-[[(azanylidene-$l^{4}-azanylidene)amino]methyl]-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]sulfanyl-N-[[(2R,3S,4R,5R)-5-(6-azanyl-8-bromanyl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl]ethanamide _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 N6N C6N ZNB sing 396 n n BR8 C8N ZNB sing 397 n n N7N C8N ZNB doub 398 n y N7N C5N ZNB sing 399 n y C8N N9N ZNB sing 400 n y C6N C5N ZNB doub 401 n y C6N N1N ZNB sing 402 n y C5N C4N ZNB sing 403 n y C2' O2' ZNB sing 404 n n C2' C3' ZNB sing 405 n n C2' C1' ZNB sing 406 n n N1N C2N ZNB doub 407 n y N9N C4N ZNB sing 408 n y N9N C1' ZNB sing 409 n n O3' C3' ZNB sing 410 n n C4N N3N ZNB doub 411 n y C3' C4' ZNB sing 412 n n C2N N3N ZNB sing 413 n y C1' O4' ZNB sing 414 n n O4' C4' ZNB sing 415 n n C4' C5' ZNB sing 416 n n C5' N5' ZNB sing 417 n n N6A C6A ZNB sing 418 n n N53 N52 ZNB doub 419 n n N5' C83 ZNB sing 420 n n C6A N1A ZNB doub 421 n y C6A C5A ZNB sing 422 n y N52 N51 ZNB doub 423 n n N1A C2A ZNB sing 424 n y C5A N7A ZNB sing 425 n y C5A C4A ZNB doub 426 n y N7A C8A ZNB doub 427 n y N51 C5 ZNB sing 428 n n C2A N3A ZNB doub 429 n y C4A N3A ZNB sing 430 n y C4A N9A ZNB sing 431 n y C8A S81 ZNB sing 432 n n C8A N9A ZNB sing 433 n y C83 O83 ZNB doub 434 n n C83 C82 ZNB sing 435 n n S81 C82 ZNB sing 436 n n O4 C1 ZNB sing 437 n n O4 C4 ZNB sing 438 n n N9A C1 ZNB sing 439 n n C5 C4 ZNB sing 440 n n C1 C3 ZNB sing 441 n n C4 C2 ZNB sing 442 n n C3 C2 ZNB sing 443 n n C3 O3 ZNB sing 444 n n C2 O2 ZNB sing 445 n n C5 H2 ZNB sing 446 n n C5 H3 ZNB sing 447 n n C4 H4 ZNB sing 448 n n C2 H5 ZNB sing 449 n n O2 H6 ZNB sing 450 n n C3 H7 ZNB sing 451 n n O3 H8 ZNB sing 452 n n C1 H9 ZNB sing 453 n n C2A H10 ZNB sing 454 n n N6A H11 ZNB sing 455 n n N6A H12 ZNB sing 456 n n C82 H13 ZNB sing 457 n n C82 H14 ZNB sing 458 n n N5' H15 ZNB sing 459 n n C5' H16 ZNB sing 460 n n C5' H17 ZNB sing 461 n n C4' H18 ZNB sing 462 n n C3' H19 ZNB sing 463 n n O3' H20 ZNB sing 464 n n C2' H21 ZNB sing 465 n n O2' H22 ZNB sing 466 n n C1' H23 ZNB sing 467 n n C2N H24 ZNB sing 468 n n N6N H25 ZNB sing 469 n n N6N H26 ZNB sing 470 n n # _atom_sites.entry_id 3V8P _atom_sites.fract_transf_matrix[1][1] 0.015886 _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] 0.013221 _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] 0.00842 _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 CIT A 1 301 1 CIT CIT . C 3 ZNB A 1 302 1 ZNB ZNB . D 4 HOH A 1 401 1 HOH HOH . D 4 HOH A 2 402 2 HOH HOH . D 4 HOH A 3 403 3 HOH HOH . D 4 HOH A 4 404 4 HOH HOH . D 4 HOH A 5 405 5 HOH HOH . D 4 HOH A 6 406 6 HOH HOH . D 4 HOH A 7 407 7 HOH HOH . D 4 HOH A 8 408 8 HOH HOH . D 4 HOH A 9 409 9 HOH HOH . D 4 HOH A 10 410 10 HOH HOH . D 4 HOH A 11 411 11 HOH HOH . D 4 HOH A 12 412 12 HOH HOH . D 4 HOH A 13 413 13 HOH HOH . D 4 HOH A 14 414 14 HOH HOH . D 4 HOH A 15 415 15 HOH HOH . D 4 HOH A 16 416 16 HOH HOH . D 4 HOH A 17 417 17 HOH HOH . D 4 HOH A 18 418 18 HOH HOH . D 4 HOH A 19 419 19 HOH HOH . D 4 HOH A 20 420 20 HOH HOH . D 4 HOH A 21 421 21 HOH HOH . D 4 HOH A 22 422 24 HOH HOH . D 4 HOH A 23 423 25 HOH HOH . D 4 HOH A 24 424 26 HOH HOH . D 4 HOH A 25 425 27 HOH HOH . D 4 HOH A 26 426 28 HOH HOH . D 4 HOH A 27 427 29 HOH HOH . D 4 HOH A 28 428 30 HOH HOH . D 4 HOH A 29 429 31 HOH HOH . D 4 HOH A 30 430 32 HOH HOH . D 4 HOH A 31 431 33 HOH HOH . D 4 HOH A 32 432 34 HOH HOH . D 4 HOH A 33 433 35 HOH HOH . D 4 HOH A 34 434 36 HOH HOH . D 4 HOH A 35 435 38 HOH HOH . D 4 HOH A 36 436 39 HOH HOH . D 4 HOH A 37 437 40 HOH HOH . D 4 HOH A 38 438 41 HOH HOH . D 4 HOH A 39 439 42 HOH HOH . D 4 HOH A 40 440 44 HOH HOH . D 4 HOH A 41 441 45 HOH HOH . D 4 HOH A 42 442 46 HOH HOH . D 4 HOH A 43 443 47 HOH HOH . D 4 HOH A 44 444 48 HOH HOH . D 4 HOH A 45 445 49 HOH HOH . D 4 HOH A 46 446 50 HOH HOH . D 4 HOH A 47 447 51 HOH HOH . D 4 HOH A 48 448 52 HOH HOH . D 4 HOH A 49 449 53 HOH HOH . D 4 HOH A 50 450 54 HOH HOH . D 4 HOH A 51 451 55 HOH HOH . D 4 HOH A 52 452 56 HOH HOH . D 4 HOH A 53 453 57 HOH HOH . D 4 HOH A 54 454 58 HOH HOH . D 4 HOH A 55 455 59 HOH HOH . D 4 HOH A 56 456 60 HOH HOH . D 4 HOH A 57 457 61 HOH HOH . D 4 HOH A 58 458 62 HOH HOH . D 4 HOH A 59 459 63 HOH HOH . D 4 HOH A 60 460 64 HOH HOH . D 4 HOH A 61 461 66 HOH HOH . D 4 HOH A 62 462 67 HOH HOH . D 4 HOH A 63 463 68 HOH HOH . D 4 HOH A 64 464 69 HOH HOH . D 4 HOH A 65 465 70 HOH HOH . D 4 HOH A 66 466 71 HOH HOH . D 4 HOH A 67 467 73 HOH HOH . D 4 HOH A 68 468 75 HOH HOH . D 4 HOH A 69 469 76 HOH HOH . D 4 HOH A 70 470 77 HOH HOH . D 4 HOH A 71 471 79 HOH HOH . D 4 HOH A 72 472 81 HOH HOH . D 4 HOH A 73 473 82 HOH HOH . D 4 HOH A 74 474 84 HOH HOH . D 4 HOH A 75 475 85 HOH HOH . D 4 HOH A 76 476 87 HOH HOH . D 4 HOH A 77 477 89 HOH HOH . D 4 HOH A 78 478 91 HOH HOH . D 4 HOH A 79 479 93 HOH HOH . D 4 HOH A 80 480 95 HOH HOH . D 4 HOH A 81 481 96 HOH HOH . D 4 HOH A 82 482 98 HOH HOH . D 4 HOH A 83 483 99 HOH HOH . D 4 HOH A 84 484 102 HOH HOH . D 4 HOH A 85 485 103 HOH HOH . D 4 HOH A 86 486 104 HOH HOH . D 4 HOH A 87 487 105 HOH HOH . D 4 HOH A 88 488 106 HOH HOH . D 4 HOH A 89 489 107 HOH HOH . D 4 HOH A 90 490 108 HOH HOH . D 4 HOH A 91 491 109 HOH HOH . D 4 HOH A 92 492 110 HOH HOH . D 4 HOH A 93 493 111 HOH HOH . D 4 HOH A 94 494 112 HOH HOH . D 4 HOH A 95 495 113 HOH HOH . D 4 HOH A 96 496 115 HOH HOH . D 4 HOH A 97 497 117 HOH HOH . D 4 HOH A 98 498 118 HOH HOH . D 4 HOH A 99 499 119 HOH HOH . D 4 HOH A 100 500 121 HOH HOH . D 4 HOH A 101 501 122 HOH HOH . D 4 HOH A 102 502 123 HOH HOH . D 4 HOH A 103 503 124 HOH HOH . D 4 HOH A 104 504 125 HOH HOH . D 4 HOH A 105 505 126 HOH HOH . D 4 HOH A 106 506 127 HOH HOH . D 4 HOH A 107 507 128 HOH HOH . D 4 HOH A 108 508 129 HOH HOH . D 4 HOH A 109 509 130 HOH HOH . D 4 HOH A 110 510 131 HOH HOH . D 4 HOH A 111 511 132 HOH HOH . D 4 HOH A 112 512 133 HOH HOH . D 4 HOH A 113 513 134 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 N53 ZNB . . . C 3 15.068 5.644 11.321 0.6 54.21 ? N53 ZNB 302 A 1 HETATM 2 N N52 ZNB . . . C 3 15.974 6.304 11.95 0.6 54.1 ? N52 ZNB 302 A 1 HETATM 3 N N51 ZNB . . . C 3 16.866 6.997 12.529 0.6 53.77 ? N51 ZNB 302 A 1 HETATM 4 C C5 ZNB . . . C 3 17.46 6.61 13.808 0.8 53.32 ? C5 ZNB 302 A 1 HETATM 5 C C4 ZNB . . . C 3 18.613 7.523 14.092 0.8 49.67 ? C4 ZNB 302 A 1 HETATM 6 O O4 ZNB . . . C 3 18.307 8.649 13.363 0.8 47.42 ? O4 ZNB 302 A 1 HETATM 7 C C2 ZNB . . . C 3 18.498 7.973 15.535 0.8 48.77 ? C2 ZNB 302 A 1 HETATM 8 O O2 ZNB . . . C 3 19.677 7.569 16.188 0.8 52.23 ? O2 ZNB 302 A 1 HETATM 9 C C3 ZNB . . . C 3 18.506 9.488 15.482 0.8 45.39 ? C3 ZNB 302 A 1 HETATM 10 O O3 ZNB . . . C 3 19.536 9.918 16.349 0.8 47.12 ? O3 ZNB 302 A 1 HETATM 11 C C1 ZNB . . . C 3 18.979 9.667 14.071 0.8 41.82 ? C1 ZNB 302 A 1 HETATM 12 N N9A ZNB . . . C 3 19.005 10.967 13.377 0.8 33.32 ? N9A ZNB 302 A 1 HETATM 13 C C4A ZNB . . . C 3 20.176 11.386 12.967 0.8 27.85 ? C4A ZNB 302 A 1 HETATM 14 N N3A ZNB . . . C 3 21.391 10.854 13.08 0.8 22.96 ? N3A ZNB 302 A 1 HETATM 15 C C2A ZNB . . . C 3 22.423 11.473 12.584 0.8 24.89 ? C2A ZNB 302 A 1 HETATM 16 N N1A ZNB . . . C 3 22.302 12.618 11.965 0.8 26.88 ? N1A ZNB 302 A 1 HETATM 17 C C6A ZNB . . . C 3 21.13 13.218 11.829 0.8 26.77 ? C6A ZNB 302 A 1 HETATM 18 N N6A ZNB . . . C 3 21.066 14.358 11.205 0.8 17.53 ? N6A ZNB 302 A 1 HETATM 19 C C5A ZNB . . . C 3 19.999 12.589 12.343 0.8 26.65 ? C5A ZNB 302 A 1 HETATM 20 N N7A ZNB . . . C 3 18.719 12.86 12.387 0.8 26.93 ? N7A ZNB 302 A 1 HETATM 21 C C8A ZNB . . . C 3 18.102 11.871 12.987 0.8 29.61 ? C8A ZNB 302 A 1 HETATM 22 S S81 ZNB . . . C 3 16.358 12.005 13.223 0.8 44.79 ? S81 ZNB 302 A 1 HETATM 23 C C82 ZNB . . . C 3 15.638 10.489 13.945 0.8 50.22 ? C82 ZNB 302 A 1 HETATM 24 C C83 ZNB . . . C 3 14.531 9.999 13.01 0.8 48.51 ? C83 ZNB 302 A 1 HETATM 25 O O83 ZNB . . . C 3 13.461 9.557 13.387 0.8 48.12 ? O83 ZNB 302 A 1 HETATM 26 N N5' ZNB . . . C 3 14.891 10.219 11.776 0.8 48.03 ? N5' ZNB 302 A 1 HETATM 27 C C5' ZNB . . . C 3 14.286 9.872 10.511 0.8 44.02 ? C5' ZNB 302 A 1 HETATM 28 C C4' ZNB . . . C 3 15.598 9.718 9.726 0.8 40.04 ? C4' ZNB 302 A 1 HETATM 29 O O4' ZNB . . . C 3 16.035 8.387 9.721 0.8 38.85 ? O4' ZNB 302 A 1 HETATM 30 C C3' ZNB . . . C 3 15.518 10.07 8.271 0.8 34.02 ? C3' ZNB 302 A 1 HETATM 31 O O3' ZNB . . . C 3 15.42 11.484 8.135 0.8 28.89 ? O3' ZNB 302 A 1 HETATM 32 C C2' ZNB . . . C 3 16.868 9.506 7.846 0.8 31.86 ? C2' ZNB 302 A 1 HETATM 33 O O2' ZNB . . . C 3 17.888 10.408 8.138 0.8 29.77 ? O2' ZNB 302 A 1 HETATM 34 C C1' ZNB . . . C 3 17.067 8.316 8.761 0.8 35.59 ? C1' ZNB 302 A 1 HETATM 35 N N9N ZNB . . . C 3 17.059 6.999 8.065 0.8 38.24 ? N9N ZNB 302 A 1 HETATM 36 C C8N ZNB . . . C 3 16.133 6.45 7.279 0.8 41.51 ? C8N ZNB 302 A 1 HETATM 37 BR BR8 ZNB . . . C 3 14.461 7.142 6.69 0.5 64.64 ? BR8 ZNB 302 A 1 HETATM 38 N N7N ZNB . . . C 3 16.528 5.263 6.882 0.8 41.94 ? N7N ZNB 302 A 1 HETATM 39 C C5N ZNB . . . C 3 17.708 5.033 7.409 0.8 37.06 ? C5N ZNB 302 A 1 HETATM 40 C C4N ZNB . . . C 3 18.042 6.134 8.159 0.8 35.26 ? C4N ZNB 302 A 1 HETATM 41 N N3N ZNB . . . C 3 19.199 6.163 8.798 0.8 28.25 ? N3N ZNB 302 A 1 HETATM 42 C C2N ZNB . . . C 3 19.997 5.141 8.705 0.8 27 ? C2N ZNB 302 A 1 HETATM 43 N N1N ZNB . . . C 3 19.719 4.074 7.997 0.8 25.09 ? N1N ZNB 302 A 1 HETATM 44 C C6N ZNB . . . C 3 18.597 3.973 7.331 0.8 28.65 ? C6N ZNB 302 A 1 HETATM 45 N N6N ZNB . . . C 3 18.348 2.892 6.636 0.8 24.46 ? N6N ZNB 302 A 1 # _model_server_stats.io_time_ms 68 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 45 #