data_3SEC # _model_server_result.job_id YncZo3klJb0WrzhQu2t2oA _model_server_result.datetime_utc '2024-10-13 02:28:39' _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 3sec # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":2000}' # _entry.id 3SEC # _exptl.entry_id 3SEC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 339.196 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1S)-1,4-anhydro-1-(5-carbamoyl-4-hydroxy-1H-pyrazol-3-yl)-5-O-phosphono-D-ribitol _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 3SEC _cell.length_a 58.244 _cell.length_b 103.574 _cell.length_c 73.739 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3SEC _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 4_566 x,-y+1,-z+1 1 0 0 0 -1 0 0 0 -1 0 103.574 73.739 # _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 'C9 H14 N3 O9 P' _chem_comp.formula_weight 339.196 _chem_comp.id PFU _chem_comp.mon_nstd_flag . _chem_comp.name (1S)-1,4-anhydro-1-(5-carbamoyl-4-hydroxy-1H-pyrazol-3-yl)-5-O-phosphono-D-ribitol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Pyrazofurin Monophosphate' # 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 O1P P PFU doub 250 n n O2P P PFU sing 251 n n P O5' PFU sing 252 n n P O3P PFU sing 253 n n N2 C1 PFU doub 254 n y C2 C1 PFU sing 255 n y C1 C1' PFU sing 256 n n N1 C3 PFU sing 257 n y N1 N2 PFU sing 258 n y C2 O1 PFU sing 259 n n O1 HO1 PFU sing 260 n n C3 C2 PFU doub 261 n y C4 O2 PFU doub 262 n n C4 C3 PFU sing 263 n n N3 C4 PFU sing 264 n n N3 HN3 PFU sing 265 n n N3 HN3A PFU sing 266 n n O4' C1' PFU sing 267 n n C1' C2' PFU sing 268 n n C1' H1' PFU sing 269 n n C2' C3' PFU sing 270 n n C2' O2' PFU sing 271 n n C2' H2' PFU sing 272 n n O2' HO2' PFU sing 273 n n O2P HO2P PFU sing 274 n n C4' C3' PFU sing 275 n n C3' O3' PFU sing 276 n n C3' H3' PFU sing 277 n n O3' HO3' PFU sing 278 n n O3P HO3P PFU sing 279 n n C5' C4' PFU sing 280 n n O4' C4' PFU sing 281 n n C4' H4' PFU sing 282 n n C5' O5' PFU sing 283 n n C5' H5' PFU sing 284 n n C5' "H5'A" PFU sing 285 n n N1 HN1 PFU sing 286 n n # _atom_sites.entry_id 3SEC _atom_sites.fract_transf_matrix[1][1] 0.017169 _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] 0.009655 _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] 0.013561 _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 GOL A 1 1000 1000 GOL GOL . C 3 PFU A 1 2000 2000 PFU PFU . D 4 HOH A 1 248 1 HOH HOH . D 4 HOH A 2 249 2 HOH HOH . D 4 HOH A 3 250 3 HOH HOH . D 4 HOH A 4 251 4 HOH HOH . D 4 HOH A 5 252 5 HOH HOH . D 4 HOH A 6 253 6 HOH HOH . D 4 HOH A 7 254 7 HOH HOH . D 4 HOH A 8 255 8 HOH HOH . D 4 HOH A 9 256 9 HOH HOH . D 4 HOH A 10 257 10 HOH HOH . D 4 HOH A 11 258 11 HOH HOH . D 4 HOH A 12 259 12 HOH HOH . D 4 HOH A 13 260 13 HOH HOH . D 4 HOH A 14 261 14 HOH HOH . D 4 HOH A 15 262 15 HOH HOH . D 4 HOH A 16 263 16 HOH HOH . D 4 HOH A 17 264 17 HOH HOH . D 4 HOH A 18 265 18 HOH HOH . D 4 HOH A 19 266 19 HOH HOH . D 4 HOH A 20 267 20 HOH HOH . D 4 HOH A 21 268 21 HOH HOH . D 4 HOH A 22 269 22 HOH HOH . D 4 HOH A 23 270 23 HOH HOH . D 4 HOH A 24 271 24 HOH HOH . D 4 HOH A 25 272 25 HOH HOH . D 4 HOH A 26 273 26 HOH HOH . D 4 HOH A 27 274 27 HOH HOH . D 4 HOH A 28 275 28 HOH HOH . D 4 HOH A 29 276 29 HOH HOH . D 4 HOH A 30 277 30 HOH HOH . D 4 HOH A 31 278 31 HOH HOH . D 4 HOH A 32 279 32 HOH HOH . D 4 HOH A 33 280 33 HOH HOH . D 4 HOH A 34 281 34 HOH HOH . D 4 HOH A 35 282 35 HOH HOH . D 4 HOH A 36 283 36 HOH HOH . D 4 HOH A 37 284 37 HOH HOH . D 4 HOH A 38 285 38 HOH HOH . D 4 HOH A 39 286 39 HOH HOH . D 4 HOH A 40 287 40 HOH HOH . D 4 HOH A 41 288 41 HOH HOH . D 4 HOH A 42 289 42 HOH HOH . D 4 HOH A 43 290 43 HOH HOH . D 4 HOH A 44 291 44 HOH HOH . D 4 HOH A 45 292 45 HOH HOH . D 4 HOH A 46 293 46 HOH HOH . D 4 HOH A 47 294 47 HOH HOH . D 4 HOH A 48 295 48 HOH HOH . D 4 HOH A 49 296 49 HOH HOH . D 4 HOH A 50 297 50 HOH HOH . D 4 HOH A 51 298 51 HOH HOH . D 4 HOH A 52 299 52 HOH HOH . D 4 HOH A 53 300 53 HOH HOH . D 4 HOH A 54 301 54 HOH HOH . D 4 HOH A 55 302 55 HOH HOH . D 4 HOH A 56 303 56 HOH HOH . D 4 HOH A 57 304 57 HOH HOH . D 4 HOH A 58 305 58 HOH HOH . D 4 HOH A 59 306 59 HOH HOH . D 4 HOH A 60 307 60 HOH HOH . D 4 HOH A 61 308 61 HOH HOH . D 4 HOH A 62 309 62 HOH HOH . D 4 HOH A 63 310 63 HOH HOH . D 4 HOH A 64 311 64 HOH HOH . D 4 HOH A 65 312 65 HOH HOH . D 4 HOH A 66 313 66 HOH HOH . D 4 HOH A 67 314 67 HOH HOH . D 4 HOH A 68 315 68 HOH HOH . D 4 HOH A 69 316 69 HOH HOH . D 4 HOH A 70 317 70 HOH HOH . D 4 HOH A 71 318 71 HOH HOH . D 4 HOH A 72 319 72 HOH HOH . D 4 HOH A 73 320 73 HOH HOH . D 4 HOH A 74 321 74 HOH HOH . D 4 HOH A 75 322 75 HOH HOH . D 4 HOH A 76 323 76 HOH HOH . D 4 HOH A 77 324 77 HOH HOH . D 4 HOH A 78 325 78 HOH HOH . D 4 HOH A 79 326 79 HOH HOH . D 4 HOH A 80 327 80 HOH HOH . D 4 HOH A 81 328 81 HOH HOH . D 4 HOH A 82 329 82 HOH HOH . D 4 HOH A 83 330 83 HOH HOH . D 4 HOH A 84 331 84 HOH HOH . D 4 HOH A 85 332 85 HOH HOH . D 4 HOH A 86 333 86 HOH HOH . D 4 HOH A 87 334 87 HOH HOH . D 4 HOH A 88 335 88 HOH HOH . D 4 HOH A 89 336 89 HOH HOH . D 4 HOH A 90 337 90 HOH HOH . D 4 HOH A 91 338 91 HOH HOH . D 4 HOH A 92 339 92 HOH HOH . D 4 HOH A 93 340 93 HOH HOH . D 4 HOH A 94 341 94 HOH HOH . D 4 HOH A 95 342 95 HOH HOH . D 4 HOH A 96 343 96 HOH HOH . D 4 HOH A 97 344 97 HOH HOH . D 4 HOH A 98 345 98 HOH HOH . D 4 HOH A 99 346 99 HOH HOH . D 4 HOH A 100 347 100 HOH HOH . D 4 HOH A 101 348 101 HOH HOH . D 4 HOH A 102 349 102 HOH HOH . D 4 HOH A 103 350 103 HOH HOH . D 4 HOH A 104 351 104 HOH HOH . D 4 HOH A 105 352 105 HOH HOH . D 4 HOH A 106 353 106 HOH HOH . D 4 HOH A 107 354 107 HOH HOH . D 4 HOH A 108 355 108 HOH HOH . D 4 HOH A 109 356 109 HOH HOH . D 4 HOH A 110 357 110 HOH HOH . D 4 HOH A 111 358 111 HOH HOH . D 4 HOH A 112 359 112 HOH HOH . D 4 HOH A 113 360 113 HOH HOH . D 4 HOH A 114 361 114 HOH HOH . D 4 HOH A 115 362 115 HOH HOH . D 4 HOH A 116 363 116 HOH HOH . D 4 HOH A 117 364 117 HOH HOH . D 4 HOH A 118 365 118 HOH HOH . D 4 HOH A 119 366 119 HOH HOH . D 4 HOH A 120 367 120 HOH HOH . D 4 HOH A 121 368 121 HOH HOH . D 4 HOH A 122 369 122 HOH HOH . D 4 HOH A 123 370 123 HOH HOH . D 4 HOH A 124 371 124 HOH HOH . D 4 HOH A 125 372 125 HOH HOH . D 4 HOH A 126 373 126 HOH HOH . D 4 HOH A 127 374 127 HOH HOH . D 4 HOH A 128 375 128 HOH HOH . D 4 HOH A 129 376 129 HOH HOH . D 4 HOH A 130 377 130 HOH HOH . D 4 HOH A 131 378 131 HOH HOH . D 4 HOH A 132 379 132 HOH HOH . D 4 HOH A 133 380 133 HOH HOH . D 4 HOH A 134 381 134 HOH HOH . D 4 HOH A 135 382 135 HOH HOH . D 4 HOH A 136 383 136 HOH HOH . D 4 HOH A 137 384 137 HOH HOH . D 4 HOH A 138 385 138 HOH HOH . D 4 HOH A 139 386 139 HOH HOH . D 4 HOH A 140 387 140 HOH HOH . D 4 HOH A 141 388 141 HOH HOH . D 4 HOH A 142 389 142 HOH HOH . D 4 HOH A 143 390 143 HOH HOH . D 4 HOH A 144 391 144 HOH HOH . D 4 HOH A 145 392 145 HOH HOH . D 4 HOH A 146 393 146 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 P P PFU . . . C 3 39.05 34.632 35.252 1 11.44 ? P PFU 2000 A 1 HETATM 2 C C1 PFU . . . C 3 41.641 39.837 37.452 1 10.04 ? C1 PFU 2000 A 1 HETATM 3 N N1 PFU . . . C 3 43.799 39.275 37.069 1 9.99 ? N1 PFU 2000 A 1 HETATM 4 O O1 PFU . . . C 3 42.107 41.661 39.2 1 11.43 ? O1 PFU 2000 A 1 HETATM 5 C C2 PFU . . . C 3 42.542 40.644 38.26 1 10.73 ? C2 PFU 2000 A 1 HETATM 6 N N2 PFU . . . C 3 42.46 39.027 36.754 1 11.03 ? N2 PFU 2000 A 1 HETATM 7 O O2 PFU . . . C 3 46.109 40.152 38.506 1 14.12 ? O2 PFU 2000 A 1 HETATM 8 C C3 PFU . . . C 3 43.917 40.268 37.972 1 11.75 ? C3 PFU 2000 A 1 HETATM 9 N N3 PFU . . . C 3 44.957 41.822 39.549 1 15.13 ? N3 PFU 2000 A 1 HETATM 10 C C4 PFU . . . C 3 45.097 40.801 38.683 1 12.71 ? C4 PFU 2000 A 1 HETATM 11 C C1' PFU . . . C 3 40.181 39.906 37.469 1 10.65 ? C1' PFU 2000 A 1 HETATM 12 O O1P PFU . . . C 3 37.884 34.544 34.31 1 11.43 ? O1P PFU 2000 A 1 HETATM 13 C C2' PFU . . . C 3 39.631 39.766 36.067 1 10.29 ? C2' PFU 2000 A 1 HETATM 14 O O2' PFU . . . C 3 39.288 41.066 35.594 1 11.96 ? O2' PFU 2000 A 1 HETATM 15 O O2P PFU . . . C 3 39.097 33.556 36.306 1 10.81 ? O2P PFU 2000 A 1 HETATM 16 C C3' PFU . . . C 3 38.389 38.935 36.33 1 10.13 ? C3' PFU 2000 A 1 HETATM 17 O O3' PFU . . . C 3 37.347 39.746 36.919 1 12.03 ? O3' PFU 2000 A 1 HETATM 18 O O3P PFU . . . C 3 40.341 34.856 34.512 1 11.49 ? O3P PFU 2000 A 1 HETATM 19 C C4' PFU . . . C 3 38.895 37.951 37.379 1 10.43 ? C4' PFU 2000 A 1 HETATM 20 O O4' PFU . . . C 3 39.812 38.708 38.175 1 12.35 ? O4' PFU 2000 A 1 HETATM 21 C C5' PFU . . . C 3 39.615 36.745 36.762 1 12.52 ? C5' PFU 2000 A 1 HETATM 22 O O5' PFU . . . C 3 38.645 36.002 36.03 1 13.85 ? O5' PFU 2000 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 22 #