data_8UAY # _model_server_result.job_id u4G8PMhJqHOWPNqTRRfQxQ _model_server_result.datetime_utc '2024-12-13 04:41:22' _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 8uay # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 8UAY # _exptl.entry_id 8UAY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 503.407 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2S)-2-{[(R)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl]amino}-5-carbamimidamidopentanoic acid (non-preferred name)' _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 91.75 _cell.angle_gamma 90 _cell.entry_id 8UAY _cell.length_a 99.508 _cell.length_b 31.128 _cell.length_c 68.575 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8UAY _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_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,E 1 1 B,D,F 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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 26 A CYS 26 1_555 A SG CYS 84 A CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 40 A CYS 40 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 58 A CYS 58 1_555 A SG CYS 110 A CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf4 A SG CYS 65 A CYS 65 1_555 A SG CYS 72 A CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? disulf ? disulf5 B SG CYS 26 B CYS 26 1_555 B SG CYS 84 B CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 B SG CYS 40 B CYS 40 1_555 B SG CYS 95 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf7 B SG CYS 58 B CYS 58 1_555 B SG CYS 110 B CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf8 B SG CYS 65 B CYS 65 1_555 B SG CYS 72 B CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? # _chem_comp.formula 'C16 H26 N9 O8 P' _chem_comp.formula_weight 503.407 _chem_comp.id WF9 _chem_comp.mon_nstd_flag . _chem_comp.name '(2S)-2-{[(R)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl]amino}-5-carbamimidamidopentanoic acid (non-preferred name)' _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 O C WF9 doub 364 n n C OXT WF9 sing 365 n n C CA WF9 sing 366 n n OP2 P WF9 doub 367 n n CA CB WF9 sing 368 n n CA N WF9 sing 369 n n P N WF9 sing 370 n n P OP1 WF9 sing 371 n n P O5' WF9 sing 372 n n CB CG WF9 sing 373 n n CG CD WF9 sing 374 n n O5' C5' WF9 sing 375 n n C5' C4' WF9 sing 376 n n CD NE WF9 sing 377 n n O3' C3' WF9 sing 378 n n C4' C3' WF9 sing 379 n n C4' O4' WF9 sing 380 n n C3' C2' WF9 sing 381 n n NE CZ WF9 sing 382 n n O4' C1' WF9 sing 383 n n C2' O2' WF9 sing 384 n n C2' C1' WF9 sing 385 n n CZ NH1 WF9 doub 386 n n CZ NH2 WF9 sing 387 n n C1' N9 WF9 sing 388 n n N9 C8 WF9 sing 389 n y N9 C4 WF9 sing 390 n y N3 C4 WF9 doub 391 n y N3 C2 WF9 sing 392 n y C8 N7 WF9 doub 393 n y C4 C5 WF9 sing 394 n y C2 N1 WF9 doub 395 n y N7 C5 WF9 sing 396 n y C5 C6 WF9 doub 397 n y N1 C6 WF9 sing 398 n y C6 N6 WF9 sing 399 n n C2 H1 WF9 sing 400 n n C8 H2 WF9 sing 401 n n N6 H3 WF9 sing 402 n n N6 H4 WF9 sing 403 n n C1' H5 WF9 sing 404 n n C2' H6 WF9 sing 405 n n O2' H7 WF9 sing 406 n n C3' H8 WF9 sing 407 n n O3' H9 WF9 sing 408 n n C4' H10 WF9 sing 409 n n C5' H11 WF9 sing 410 n n C5' H12 WF9 sing 411 n n OP1 H13 WF9 sing 412 n n N H14 WF9 sing 413 n n CA H15 WF9 sing 414 n n OXT H16 WF9 sing 415 n n CB H17 WF9 sing 416 n n CB H18 WF9 sing 417 n n CG H19 WF9 sing 418 n n CG H20 WF9 sing 419 n n CD H21 WF9 sing 420 n n CD H22 WF9 sing 421 n n NE H23 WF9 sing 422 n n NH2 H24 WF9 sing 423 n n NH2 H25 WF9 sing 424 n n NH1 H26 WF9 sing 425 n n # _atom_sites.entry_id 8UAY _atom_sites.fract_transf_matrix[1][1] 0.010049 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000307 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.032125 _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] 0.014589 _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 WF9 A 1 201 201 WF9 AGY . D 3 PEG B 1 201 1 PEG PEG . E 4 HOH A 1 301 39 HOH HOH . E 4 HOH A 2 302 34 HOH HOH . E 4 HOH A 3 303 102 HOH HOH . E 4 HOH A 4 304 95 HOH HOH . E 4 HOH A 5 305 127 HOH HOH . E 4 HOH A 6 306 59 HOH HOH . E 4 HOH A 7 307 114 HOH HOH . E 4 HOH A 8 308 19 HOH HOH . E 4 HOH A 9 309 99 HOH HOH . E 4 HOH A 10 310 28 HOH HOH . E 4 HOH A 11 311 100 HOH HOH . E 4 HOH A 12 312 42 HOH HOH . E 4 HOH A 13 313 23 HOH HOH . E 4 HOH A 14 314 106 HOH HOH . E 4 HOH A 15 315 4 HOH HOH . E 4 HOH A 16 316 3 HOH HOH . E 4 HOH A 17 317 97 HOH HOH . E 4 HOH A 18 318 96 HOH HOH . E 4 HOH A 19 319 74 HOH HOH . E 4 HOH A 20 320 7 HOH HOH . E 4 HOH A 21 321 63 HOH HOH . E 4 HOH A 22 322 40 HOH HOH . E 4 HOH A 23 323 69 HOH HOH . E 4 HOH A 24 324 41 HOH HOH . E 4 HOH A 25 325 2 HOH HOH . E 4 HOH A 26 326 118 HOH HOH . E 4 HOH A 27 327 52 HOH HOH . E 4 HOH A 28 328 57 HOH HOH . E 4 HOH A 29 329 18 HOH HOH . E 4 HOH A 30 330 36 HOH HOH . E 4 HOH A 31 331 35 HOH HOH . E 4 HOH A 32 332 5 HOH HOH . E 4 HOH A 33 333 65 HOH HOH . E 4 HOH A 34 334 98 HOH HOH . E 4 HOH A 35 335 14 HOH HOH . E 4 HOH A 36 336 90 HOH HOH . E 4 HOH A 37 337 24 HOH HOH . E 4 HOH A 38 338 113 HOH HOH . E 4 HOH A 39 339 94 HOH HOH . E 4 HOH A 40 340 60 HOH HOH . E 4 HOH A 41 341 117 HOH HOH . E 4 HOH A 42 342 6 HOH HOH . E 4 HOH A 43 343 91 HOH HOH . E 4 HOH A 44 344 29 HOH HOH . E 4 HOH A 45 345 116 HOH HOH . E 4 HOH A 46 346 64 HOH HOH . E 4 HOH A 47 347 76 HOH HOH . E 4 HOH A 48 348 56 HOH HOH . E 4 HOH A 49 349 62 HOH HOH . E 4 HOH A 50 350 66 HOH HOH . E 4 HOH A 51 351 22 HOH HOH . E 4 HOH A 52 352 49 HOH HOH . E 4 HOH A 53 353 75 HOH HOH . E 4 HOH A 54 354 55 HOH HOH . E 4 HOH A 55 355 104 HOH HOH . E 4 HOH A 56 356 115 HOH HOH . E 4 HOH A 57 357 33 HOH HOH . E 4 HOH A 58 358 13 HOH HOH . E 4 HOH A 59 359 61 HOH HOH . E 4 HOH A 60 360 20 HOH HOH . E 4 HOH A 61 361 26 HOH HOH . E 4 HOH A 62 362 67 HOH HOH . E 4 HOH A 63 363 32 HOH HOH . E 4 HOH A 64 364 71 HOH HOH . E 4 HOH A 65 365 123 HOH HOH . E 4 HOH A 66 366 38 HOH HOH . E 4 HOH A 67 367 92 HOH HOH . E 4 HOH A 68 368 15 HOH HOH . E 4 HOH A 69 369 31 HOH HOH . E 4 HOH A 70 370 89 HOH HOH . E 4 HOH A 71 371 125 HOH HOH . E 4 HOH A 72 372 37 HOH HOH . E 4 HOH A 73 373 101 HOH HOH . E 4 HOH A 74 374 27 HOH HOH . E 4 HOH A 75 375 25 HOH HOH . E 4 HOH A 76 376 50 HOH HOH . E 4 HOH A 77 377 16 HOH HOH . E 4 HOH A 78 378 93 HOH HOH . E 4 HOH A 79 379 21 HOH HOH . E 4 HOH A 80 380 122 HOH HOH . E 4 HOH A 81 381 43 HOH HOH . F 4 HOH B 1 301 84 HOH HOH . F 4 HOH B 2 302 11 HOH HOH . F 4 HOH B 3 303 46 HOH HOH . F 4 HOH B 4 304 86 HOH HOH . F 4 HOH B 5 305 83 HOH HOH . F 4 HOH B 6 306 121 HOH HOH . F 4 HOH B 7 307 9 HOH HOH . F 4 HOH B 8 308 73 HOH HOH . F 4 HOH B 9 309 103 HOH HOH . F 4 HOH B 10 310 54 HOH HOH . F 4 HOH B 11 311 87 HOH HOH . F 4 HOH B 12 312 8 HOH HOH . F 4 HOH B 13 313 51 HOH HOH . F 4 HOH B 14 314 53 HOH HOH . F 4 HOH B 15 315 10 HOH HOH . F 4 HOH B 16 316 119 HOH HOH . F 4 HOH B 17 317 79 HOH HOH . F 4 HOH B 18 318 80 HOH HOH . F 4 HOH B 19 319 30 HOH HOH . F 4 HOH B 20 320 17 HOH HOH . F 4 HOH B 21 321 120 HOH HOH . F 4 HOH B 22 322 70 HOH HOH . F 4 HOH B 23 323 48 HOH HOH . F 4 HOH B 24 324 82 HOH HOH . F 4 HOH B 25 325 45 HOH HOH . F 4 HOH B 26 326 77 HOH HOH . F 4 HOH B 27 327 44 HOH HOH . F 4 HOH B 28 328 126 HOH HOH . F 4 HOH B 29 329 68 HOH HOH . F 4 HOH B 30 330 81 HOH HOH . F 4 HOH B 31 331 112 HOH HOH . F 4 HOH B 32 332 78 HOH HOH . F 4 HOH B 33 333 58 HOH HOH . F 4 HOH B 34 334 47 HOH HOH . F 4 HOH B 35 335 109 HOH HOH . F 4 HOH B 36 336 72 HOH HOH . F 4 HOH B 37 337 12 HOH HOH . F 4 HOH B 38 338 124 HOH HOH . F 4 HOH B 39 339 88 HOH HOH . F 4 HOH B 40 340 105 HOH HOH . F 4 HOH B 41 341 110 HOH HOH . F 4 HOH B 42 342 111 HOH HOH . F 4 HOH B 43 343 108 HOH HOH . F 4 HOH B 44 344 85 HOH HOH . F 4 HOH B 45 345 107 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 WF9 . . . C 2 -14.081 -11.314 19.121 1 23.83 ? N1 WF9 201 A 1 HETATM 2 C C2 WF9 . . . C 2 -13.617 -10.474 18.099 1 25.35 ? C2 WF9 201 A 1 HETATM 3 N N3 WF9 . . . C 2 -12.58 -10.943 17.265 1 26.48 ? N3 WF9 201 A 1 HETATM 4 C C4 WF9 . . . C 2 -12.065 -12.172 17.478 1 24.96 ? C4 WF9 201 A 1 HETATM 5 C C5 WF9 . . . C 2 -12.539 -12.959 18.47 1 25.5 ? C5 WF9 201 A 1 HETATM 6 C C6 WF9 . . . C 2 -13.526 -12.53 19.277 1 23.94 ? C6 WF9 201 A 1 HETATM 7 C C8 WF9 . . . C 2 -10.969 -14.026 17.431 1 29.45 ? C8 WF9 201 A 1 HETATM 8 N N6 WF9 . . . C 2 -13.925 -13.368 20.255 1 21.56 ? N6 WF9 201 A 1 HETATM 9 N N7 WF9 . . . C 2 -11.853 -14.095 18.442 1 27.2 ? N7 WF9 201 A 1 HETATM 10 N N9 WF9 . . . C 2 -11.105 -12.827 16.849 1 25.67 ? N9 WF9 201 A 1 HETATM 11 C C1' WF9 . . . C 2 -10.388 -12.289 15.684 1 26.39 ? C1' WF9 201 A 1 HETATM 12 O O4' WF9 . . . C 2 -11.421 -12.391 14.689 1 24.86 ? O4' WF9 201 A 1 HETATM 13 C C2' WF9 . . . C 2 -9.379 -13.261 15.145 1 29.96 ? C2' WF9 201 A 1 HETATM 14 O O2' WF9 . . . C 2 -8.119 -12.928 15.649 1 27.06 ? O2' WF9 201 A 1 HETATM 15 C C3' WF9 . . . C 2 -9.409 -12.96 13.654 1 26.77 ? C3' WF9 201 A 1 HETATM 16 O O3' WF9 . . . C 2 -8.557 -11.852 13.372 1 32.91 ? O3' WF9 201 A 1 HETATM 17 C C4' WF9 . . . C 2 -10.805 -12.54 13.415 1 24.77 ? C4' WF9 201 A 1 HETATM 18 C C5' WF9 . . . C 2 -11.565 -13.664 12.743 1 23 ? C5' WF9 201 A 1 HETATM 19 O O5' WF9 . . . C 2 -12.944 -13.316 12.727 1 19.11 ? O5' WF9 201 A 1 HETATM 20 P P WF9 . . . C 2 -13.852 -13.742 11.485 1 20.12 ? P WF9 201 A 1 HETATM 21 O OP1 WF9 . . . C 2 -15.178 -13.08 11.73 1 19.77 ? OP1 WF9 201 A 1 HETATM 22 O OP2 WF9 . . . C 2 -13.113 -13.476 10.24 1 16.9 ? OP2 WF9 201 A 1 HETATM 23 N N WF9 . . . C 2 -14.125 -15.408 11.715 1 19.48 ? N WF9 201 A 1 HETATM 24 C CA WF9 . . . C 2 -13.654 -16.419 10.739 1 22.58 ? CA WF9 201 A 1 HETATM 25 C C WF9 . . . C 2 -14.814 -16.933 9.772 1 20.73 ? C WF9 201 A 1 HETATM 26 O O WF9 . . . C 2 -15.262 -16.141 8.969 1 20.4 ? O WF9 201 A 1 HETATM 27 O OXT WF9 . . . C 2 -15.219 -18.111 9.845 1 23.15 ? OXT WF9 201 A 1 HETATM 28 C CB WF9 . A . C 2 -13.201 -17.645 11.573 0.5 21.31 ? CB WF9 201 A 1 HETATM 29 C CB WF9 . B . C 2 -12.828 -17.514 11.448 0.5 23.62 ? CB WF9 201 A 1 HETATM 30 C CG WF9 . A . C 2 -11.705 -17.585 11.918 0.5 21 ? CG WF9 201 A 1 HETATM 31 C CG WF9 . B . C 2 -11.523 -16.81 11.915 0.5 23.15 ? CG WF9 201 A 1 HETATM 32 C CD WF9 . A . C 2 -11.437 -16.904 13.254 0.5 22.99 ? CD WF9 201 A 1 HETATM 33 C CD WF9 . B . C 2 -10.61 -17.715 12.715 0.5 25.96 ? CD WF9 201 A 1 HETATM 34 N NE WF9 . A . C 2 -12.238 -17.435 14.362 0.5 22.27 ? NE WF9 201 A 1 HETATM 35 N NE WF9 . B . C 2 -10.634 -17.4 14.152 0.5 22.59 ? NE WF9 201 A 1 HETATM 36 C CZ WF9 . A . C 2 -11.743 -17.473 15.62 0.5 23.76 ? CZ WF9 201 A 1 HETATM 37 C CZ WF9 . B . C 2 -11.73 -17.394 14.96 0.5 26.48 ? CZ WF9 201 A 1 HETATM 38 N NH2 WF9 . A . C 2 -12.474 -17.956 16.628 0.5 21.84 ? NH2 WF9 201 A 1 HETATM 39 N NH2 WF9 . B . C 2 -11.577 -17.134 16.276 0.5 25.11 ? NH2 WF9 201 A 1 HETATM 40 N NH1 WF9 . A . C 2 -10.486 -17.028 15.851 0.5 20.85 ? NH1 WF9 201 A 1 HETATM 41 N NH1 WF9 . B . C 2 -12.96 -17.655 14.481 0.5 22.07 ? NH1 WF9 201 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 41 #