data_3SW6 # _model_server_result.job_id YSGT2CE4vvItj5ppV2Rdtw _model_server_result.datetime_utc '2024-11-23 15:21:16' _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 3sw6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1000}' # _entry.id 3SW6 # _exptl.entry_id 3SW6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 342.172 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5-FLUORO-URIDINE-5'-MONOPHOSPHATE" _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 3SW6 _cell.length_a 58.118 _cell.length_b 103.37 _cell.length_c 73.92 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3SW6 _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 _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 0 103.37 73.92 # _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 # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 72 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 72 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C6 _struct_conn.ptnr2_label_comp_id 5FU _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id 5FU _struct_conn.ptnr2_auth_seq_id 1000 _struct_conn.ptnr2_symmetry 1_555 _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 1.303 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C9 H12 F N2 O9 P' _chem_comp.formula_weight 342.172 _chem_comp.id 5FU _chem_comp.mon_nstd_flag n _chem_comp.name "5-FLUORO-URIDINE-5'-MONOPHOSPHATE" _chem_comp.type 'rna linking' _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 F5 C5 5FU sing 1 n n C5 C6 5FU doub 2 n n C5 C4 5FU sing 3 n n C4 O4 5FU doub 4 n n C4 N3 5FU sing 5 n n N3 H3 5FU sing 6 n n N3 C2 5FU sing 7 n n C2 N1 5FU sing 8 n n C2 O2 5FU doub 9 n n C6 N1 5FU sing 10 n n C6 H6 5FU sing 11 n n N1 C1' 5FU sing 12 n n C1' C2' 5FU sing 13 n n C1' H1' 5FU sing 14 n n C1' O4' 5FU sing 15 n n O4' C4' 5FU sing 16 n n C2' O2' 5FU sing 17 n n C2' H2' 5FU sing 18 n n C2' C3' 5FU sing 19 n n O2' "HO'2" 5FU sing 20 n n C3' C4' 5FU sing 21 n n C3' H3' 5FU sing 22 n n C3' O3' 5FU sing 23 n n O3' H3T 5FU sing 24 n n C4' H4' 5FU sing 25 n n C4' C5' 5FU sing 26 n n C5' "H5'1" 5FU sing 27 n n C5' "H5'2" 5FU sing 28 n n C5' O5' 5FU sing 29 n n O5' P 5FU sing 30 n n P O1P 5FU doub 31 n n P O2P 5FU sing 32 n n P O3P 5FU sing 33 n n O2P HOP2 5FU sing 34 n n O3P HOP3 5FU sing 35 n n # _atom_sites.entry_id 3SW6 _atom_sites.fract_transf_matrix[1][1] 0.017206 _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] 0.009674 _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] 0.013528 _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 5FU A 1 1000 1000 5FU 5FU . C 3 HOH A 1 248 1 HOH HOH . C 3 HOH A 2 249 2 HOH HOH . C 3 HOH A 3 250 3 HOH HOH . C 3 HOH A 4 251 4 HOH HOH . C 3 HOH A 5 252 5 HOH HOH . C 3 HOH A 6 253 6 HOH HOH . C 3 HOH A 7 254 7 HOH HOH . C 3 HOH A 8 255 8 HOH HOH . C 3 HOH A 9 256 9 HOH HOH . C 3 HOH A 10 257 10 HOH HOH . C 3 HOH A 11 258 11 HOH HOH . C 3 HOH A 12 259 12 HOH HOH . C 3 HOH A 13 260 13 HOH HOH . C 3 HOH A 14 261 14 HOH HOH . C 3 HOH A 15 262 15 HOH HOH . C 3 HOH A 16 263 16 HOH HOH . C 3 HOH A 17 264 17 HOH HOH . C 3 HOH A 18 265 18 HOH HOH . C 3 HOH A 19 266 19 HOH HOH . C 3 HOH A 20 267 20 HOH HOH . C 3 HOH A 21 268 21 HOH HOH . C 3 HOH A 22 269 22 HOH HOH . C 3 HOH A 23 270 23 HOH HOH . C 3 HOH A 24 271 24 HOH HOH . C 3 HOH A 25 272 25 HOH HOH . C 3 HOH A 26 273 26 HOH HOH . C 3 HOH A 27 274 27 HOH HOH . C 3 HOH A 28 275 28 HOH HOH . C 3 HOH A 29 276 29 HOH HOH . C 3 HOH A 30 277 30 HOH HOH . C 3 HOH A 31 278 31 HOH HOH . C 3 HOH A 32 279 32 HOH HOH . C 3 HOH A 33 280 33 HOH HOH . C 3 HOH A 34 281 34 HOH HOH . C 3 HOH A 35 282 35 HOH HOH . C 3 HOH A 36 283 36 HOH HOH . C 3 HOH A 37 284 37 HOH HOH . C 3 HOH A 38 285 38 HOH HOH . C 3 HOH A 39 286 39 HOH HOH . C 3 HOH A 40 287 40 HOH HOH . C 3 HOH A 41 288 41 HOH HOH . C 3 HOH A 42 289 42 HOH HOH . C 3 HOH A 43 290 43 HOH HOH . C 3 HOH A 44 291 44 HOH HOH . C 3 HOH A 45 292 45 HOH HOH . C 3 HOH A 46 293 46 HOH HOH . C 3 HOH A 47 294 47 HOH HOH . C 3 HOH A 48 295 48 HOH HOH . C 3 HOH A 49 296 49 HOH HOH . C 3 HOH A 50 297 50 HOH HOH . C 3 HOH A 51 298 51 HOH HOH . C 3 HOH A 52 299 52 HOH HOH . C 3 HOH A 53 300 53 HOH HOH . C 3 HOH A 54 301 54 HOH HOH . C 3 HOH A 55 302 55 HOH HOH . C 3 HOH A 56 303 56 HOH HOH . C 3 HOH A 57 304 57 HOH HOH . C 3 HOH A 58 305 58 HOH HOH . C 3 HOH A 59 306 59 HOH HOH . C 3 HOH A 60 307 60 HOH HOH . C 3 HOH A 61 308 61 HOH HOH . C 3 HOH A 62 309 62 HOH HOH . C 3 HOH A 63 310 63 HOH HOH . C 3 HOH A 64 311 64 HOH HOH . C 3 HOH A 65 312 65 HOH HOH . C 3 HOH A 66 313 66 HOH HOH . C 3 HOH A 67 314 67 HOH HOH . C 3 HOH A 68 315 68 HOH HOH . C 3 HOH A 69 316 69 HOH HOH . C 3 HOH A 70 317 70 HOH HOH . C 3 HOH A 71 318 71 HOH HOH . C 3 HOH A 72 319 72 HOH HOH . C 3 HOH A 73 320 73 HOH HOH . C 3 HOH A 74 321 74 HOH HOH . C 3 HOH A 75 322 75 HOH HOH . C 3 HOH A 76 323 76 HOH HOH . C 3 HOH A 77 324 77 HOH HOH . C 3 HOH A 78 325 78 HOH HOH . C 3 HOH A 79 326 79 HOH HOH . C 3 HOH A 80 327 80 HOH HOH . C 3 HOH A 81 328 81 HOH HOH . C 3 HOH A 82 329 82 HOH HOH . C 3 HOH A 83 330 83 HOH HOH . C 3 HOH A 84 331 84 HOH HOH . C 3 HOH A 85 332 85 HOH HOH . C 3 HOH A 86 333 86 HOH HOH . C 3 HOH A 87 334 87 HOH HOH . C 3 HOH A 88 335 88 HOH HOH . C 3 HOH A 89 336 89 HOH HOH . C 3 HOH A 90 337 90 HOH HOH . C 3 HOH A 91 338 91 HOH HOH . C 3 HOH A 92 339 92 HOH HOH . C 3 HOH A 93 340 93 HOH HOH . C 3 HOH A 94 341 94 HOH HOH . C 3 HOH A 95 342 95 HOH HOH . C 3 HOH A 96 343 96 HOH HOH . C 3 HOH A 97 344 97 HOH HOH . C 3 HOH A 98 345 98 HOH HOH . C 3 HOH A 99 346 99 HOH HOH . C 3 HOH A 100 347 100 HOH HOH . C 3 HOH A 101 348 101 HOH HOH . C 3 HOH A 102 349 102 HOH HOH . C 3 HOH A 103 350 103 HOH HOH . C 3 HOH A 104 351 104 HOH HOH . C 3 HOH A 105 352 105 HOH HOH . C 3 HOH A 106 353 106 HOH HOH . C 3 HOH A 107 354 107 HOH HOH . C 3 HOH A 108 355 108 HOH HOH . C 3 HOH A 109 356 109 HOH HOH . C 3 HOH A 110 357 110 HOH HOH . C 3 HOH A 111 358 111 HOH HOH . C 3 HOH A 112 359 112 HOH HOH . C 3 HOH A 113 360 113 HOH HOH . C 3 HOH A 114 361 114 HOH HOH . C 3 HOH A 115 362 115 HOH HOH . C 3 HOH A 116 363 116 HOH HOH . C 3 HOH A 117 364 117 HOH HOH . C 3 HOH A 118 365 118 HOH HOH . C 3 HOH A 119 366 119 HOH HOH . C 3 HOH A 120 367 120 HOH HOH . C 3 HOH A 121 368 121 HOH HOH . C 3 HOH A 122 369 122 HOH HOH . C 3 HOH A 123 370 123 HOH HOH . C 3 HOH A 124 371 124 HOH HOH . C 3 HOH A 125 372 125 HOH HOH . C 3 HOH A 126 373 126 HOH HOH . C 3 HOH A 127 374 127 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 F F5 5FU . . . B 2 43.847 43.059 38.67 1 11.8 ? F5 5FU 1000 A 1 HETATM 2 C C5 5FU . . . B 2 43.359 41.89 38.174 1 9.76 ? C5 5FU 1000 A 1 HETATM 3 C C4 5FU . . . B 2 44.253 40.893 37.842 1 7.55 ? C4 5FU 1000 A 1 HETATM 4 O O4 5FU . . . B 2 45.474 40.986 38.084 1 9.29 ? O4 5FU 1000 A 1 HETATM 5 N N3 5FU . . . B 2 43.797 39.781 37.246 1 7.24 ? N3 5FU 1000 A 1 HETATM 6 C C2 5FU . . . B 2 42.477 39.638 37.029 1 8.75 ? C2 5FU 1000 A 1 HETATM 7 O O2 5FU . . . B 2 42.156 38.617 36.371 1 8.48 ? O2 5FU 1000 A 1 HETATM 8 C C6 5FU . . . B 2 42 41.756 37.928 1 8.74 ? C6 5FU 1000 A 1 HETATM 9 N N1 5FU . . . B 2 41.571 40.587 37.363 1 7.33 ? N1 5FU 1000 A 1 HETATM 10 C C1' 5FU . . . B 2 40.145 40.262 37.324 1 7.15 ? C1' 5FU 1000 A 1 HETATM 11 O O4' 5FU . . . B 2 40.075 38.988 38.065 1 7.75 ? O4' 5FU 1000 A 1 HETATM 12 C C2' 5FU . . . B 2 39.428 39.978 36.05 1 6.88 ? C2' 5FU 1000 A 1 HETATM 13 O O2' 5FU . . . B 2 38.845 41.203 35.662 1 8.83 ? O2' 5FU 1000 A 1 HETATM 14 C C3' 5FU . . . B 2 38.376 38.952 36.465 1 8.15 ? C3' 5FU 1000 A 1 HETATM 15 O O3' 5FU . . . B 2 37.293 39.606 37.154 1 7.69 ? O3' 5FU 1000 A 1 HETATM 16 C C4' 5FU . . . B 2 39.109 38.096 37.474 1 8.11 ? C4' 5FU 1000 A 1 HETATM 17 C C5' 5FU . . . B 2 39.803 36.907 36.81 1 10.03 ? C5' 5FU 1000 A 1 HETATM 18 O O5' 5FU . . . B 2 38.749 36.049 36.344 1 9.42 ? O5' 5FU 1000 A 1 HETATM 19 P P 5FU . . . B 2 39.024 34.748 35.428 1 8.73 ? P 5FU 1000 A 1 HETATM 20 O O1P 5FU . . . B 2 37.843 34.686 34.498 1 8.63 ? O1P 5FU 1000 A 1 HETATM 21 O O2P 5FU . . . B 2 40.298 34.964 34.656 1 8.43 ? O2P 5FU 1000 A 1 HETATM 22 O O3P 5FU . . . B 2 39.121 33.549 36.343 1 8.51 ? O3P 5FU 1000 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 22 #