data_1UCA # _model_server_result.job_id 1GmihtmLra0P1TycorJFaA _model_server_result.datetime_utc '2024-10-21 09:37:09' _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 1uca # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":400}' # _entry.id 1UCA # _exptl.entry_id 1UCA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 324.181 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHORIC ACID MONO-[2-(2,4-DIOXO-3,4-DIHYDRO-2H-PYRIMIDIN-1-YL)-4-HYDROXY-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-3-YL] ESTER' _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 1UCA _cell.length_a 38.81 _cell.length_b 67.94 _cell.length_c 75.61 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1UCA _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 # _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 B _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 15 A CYS 15 1_555 A SG CYS 23 A CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 A SG CYS 48 A CYS 48 1_555 A SG CYS 91 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 151 A CYS 151 1_555 A SG CYS 184 A CYS 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 168 A CYS 168 1_555 A SG CYS 179 A CYS 179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? # _chem_comp.formula 'C9 H13 N2 O9 P' _chem_comp.formula_weight 324.181 _chem_comp.id U2P _chem_comp.mon_nstd_flag n _chem_comp.name 'PHOSPHORIC ACID MONO-[2-(2,4-DIOXO-3,4-DIHYDRO-2H-PYRIMIDIN-1-YL)-4-HYDROXY-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-3-YL] ESTER' _chem_comp.type 'rna linking' _chem_comp.pdbx_synonyms "URIDINE-2'-PHOSPHATE;2'-URIDINEMONOPHOSPHATE" # 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' U2P sing 358 n n O5' H5' U2P sing 359 n n C5' C4' U2P sing 360 n n C5' "H5'1" U2P sing 361 n n C5' "H5'2" U2P sing 362 n n C4' O4' U2P sing 363 n n C4' C3' U2P sing 364 n n C4' H4' U2P sing 365 n n O4' C1' U2P sing 366 n n C1' N1 U2P sing 367 n n C1' C2' U2P sing 368 n n C1' H1' U2P sing 369 n n N1 C6 U2P sing 370 n n N1 C2 U2P sing 371 n n C6 C5 U2P doub 372 n n C6 H6 U2P sing 373 n n C5 C4 U2P sing 374 n n C5 H5 U2P sing 375 n n C4 O4 U2P doub 376 n n C4 N3 U2P sing 377 n n N3 C2 U2P sing 378 n n N3 HN3 U2P sing 379 n n C2 O2 U2P doub 380 n n C2' O2' U2P sing 381 n n C2' C3' U2P sing 382 n n C2' H2' U2P sing 383 n n O2' P U2P sing 384 n n P O1P U2P doub 385 n n P O2P U2P sing 386 n n P O3P U2P sing 387 n n O2P H2P U2P sing 388 n n O3P H3P U2P sing 389 n n C3' O3' U2P sing 390 n n C3' H3' U2P sing 391 n n O3' H1 U2P sing 392 n n # _atom_sites.entry_id 1UCA _atom_sites.fract_transf_matrix[1][1] 0.025767 _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] 0.014719 _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] 0.013226 _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 U2P A 1 400 400 U2P UMP . C 3 HOH A 1 200 200 HOH WAT . C 3 HOH A 2 201 201 HOH WAT . C 3 HOH A 3 202 202 HOH WAT . C 3 HOH A 4 203 203 HOH WAT . C 3 HOH A 5 204 204 HOH WAT . C 3 HOH A 6 205 205 HOH WAT . C 3 HOH A 7 206 206 HOH WAT . C 3 HOH A 8 207 207 HOH WAT . C 3 HOH A 9 208 208 HOH WAT . C 3 HOH A 10 209 209 HOH WAT . C 3 HOH A 11 210 210 HOH WAT . C 3 HOH A 12 211 211 HOH WAT . C 3 HOH A 13 212 212 HOH WAT . C 3 HOH A 14 213 213 HOH WAT . C 3 HOH A 15 214 214 HOH WAT . C 3 HOH A 16 215 215 HOH WAT . C 3 HOH A 17 216 216 HOH WAT . C 3 HOH A 18 217 217 HOH WAT . C 3 HOH A 19 218 218 HOH WAT . C 3 HOH A 20 219 219 HOH WAT . C 3 HOH A 21 220 220 HOH WAT . C 3 HOH A 22 221 221 HOH WAT . C 3 HOH A 23 222 222 HOH WAT . C 3 HOH A 24 223 223 HOH WAT . C 3 HOH A 25 224 224 HOH WAT . C 3 HOH A 26 225 225 HOH WAT . C 3 HOH A 27 226 226 HOH WAT . C 3 HOH A 28 227 227 HOH WAT . C 3 HOH A 29 228 228 HOH WAT . C 3 HOH A 30 229 229 HOH WAT . C 3 HOH A 31 230 230 HOH WAT . C 3 HOH A 32 231 231 HOH WAT . C 3 HOH A 33 232 232 HOH WAT . C 3 HOH A 34 233 233 HOH WAT . C 3 HOH A 35 234 234 HOH WAT . C 3 HOH A 36 235 235 HOH WAT . C 3 HOH A 37 236 236 HOH WAT . C 3 HOH A 38 237 237 HOH WAT . C 3 HOH A 39 238 238 HOH WAT . C 3 HOH A 40 239 239 HOH WAT . C 3 HOH A 41 240 240 HOH WAT . C 3 HOH A 42 241 241 HOH WAT . C 3 HOH A 43 242 242 HOH WAT . C 3 HOH A 44 243 243 HOH WAT . C 3 HOH A 45 244 244 HOH WAT . C 3 HOH A 46 245 245 HOH WAT . C 3 HOH A 47 246 246 HOH WAT . C 3 HOH A 48 247 247 HOH WAT . C 3 HOH A 49 248 248 HOH WAT . C 3 HOH A 50 249 249 HOH WAT . C 3 HOH A 51 250 250 HOH WAT . C 3 HOH A 52 251 251 HOH WAT . C 3 HOH A 53 252 252 HOH WAT . C 3 HOH A 54 253 253 HOH WAT . C 3 HOH A 55 254 254 HOH WAT . C 3 HOH A 56 255 255 HOH WAT . C 3 HOH A 57 256 256 HOH WAT . C 3 HOH A 58 257 257 HOH WAT . C 3 HOH A 59 258 258 HOH WAT . C 3 HOH A 60 259 259 HOH WAT . C 3 HOH A 61 260 260 HOH WAT . C 3 HOH A 62 261 261 HOH WAT . C 3 HOH A 63 262 262 HOH WAT . C 3 HOH A 64 263 263 HOH WAT . C 3 HOH A 65 264 264 HOH WAT . C 3 HOH A 66 265 265 HOH WAT . C 3 HOH A 67 266 266 HOH WAT . C 3 HOH A 68 267 267 HOH WAT . C 3 HOH A 69 268 268 HOH WAT . C 3 HOH A 70 269 269 HOH WAT . C 3 HOH A 71 270 270 HOH WAT . C 3 HOH A 72 271 271 HOH WAT . C 3 HOH A 73 272 272 HOH WAT . C 3 HOH A 74 273 273 HOH WAT . C 3 HOH A 75 274 274 HOH WAT . C 3 HOH A 76 275 275 HOH WAT . C 3 HOH A 77 276 276 HOH WAT . C 3 HOH A 78 277 277 HOH WAT . C 3 HOH A 79 278 278 HOH WAT . C 3 HOH A 80 279 279 HOH WAT . C 3 HOH A 81 280 280 HOH WAT . C 3 HOH A 82 281 281 HOH WAT . C 3 HOH A 83 282 282 HOH WAT . C 3 HOH A 84 283 283 HOH WAT . C 3 HOH A 85 284 284 HOH WAT . C 3 HOH A 86 285 285 HOH WAT . C 3 HOH A 87 286 286 HOH WAT . C 3 HOH A 88 287 287 HOH WAT . C 3 HOH A 89 288 288 HOH WAT . C 3 HOH A 90 289 289 HOH WAT . C 3 HOH A 91 290 290 HOH WAT . C 3 HOH A 92 291 291 HOH WAT . C 3 HOH A 93 292 292 HOH WAT . C 3 HOH A 94 293 293 HOH WAT . C 3 HOH A 95 294 294 HOH WAT . C 3 HOH A 96 295 295 HOH WAT . C 3 HOH A 97 296 296 HOH WAT . C 3 HOH A 98 297 297 HOH WAT . C 3 HOH A 99 298 298 HOH WAT . C 3 HOH A 100 299 299 HOH WAT . C 3 HOH A 101 300 300 HOH WAT . C 3 HOH A 102 301 301 HOH WAT . C 3 HOH A 103 302 302 HOH WAT . C 3 HOH A 104 303 303 HOH WAT . C 3 HOH A 105 304 304 HOH WAT . C 3 HOH A 106 305 305 HOH WAT . C 3 HOH A 107 306 306 HOH WAT . C 3 HOH A 108 307 307 HOH WAT . C 3 HOH A 109 308 308 HOH WAT . C 3 HOH A 110 309 309 HOH WAT . C 3 HOH A 111 310 310 HOH WAT . C 3 HOH A 112 311 311 HOH WAT . C 3 HOH A 113 312 312 HOH WAT . C 3 HOH A 114 313 313 HOH WAT . C 3 HOH A 115 314 314 HOH WAT . C 3 HOH A 116 315 315 HOH WAT . C 3 HOH A 117 316 316 HOH WAT . C 3 HOH A 118 317 317 HOH WAT . C 3 HOH A 119 318 318 HOH WAT . C 3 HOH A 120 319 319 HOH WAT . C 3 HOH A 121 320 320 HOH WAT . C 3 HOH A 122 321 321 HOH WAT . C 3 HOH A 123 322 322 HOH WAT . C 3 HOH A 124 323 323 HOH WAT . C 3 HOH A 125 324 324 HOH WAT . C 3 HOH A 126 325 325 HOH WAT . C 3 HOH A 127 326 326 HOH WAT . C 3 HOH A 128 327 327 HOH WAT . C 3 HOH A 129 328 328 HOH WAT . C 3 HOH A 130 329 329 HOH WAT . C 3 HOH A 131 330 330 HOH WAT . C 3 HOH A 132 331 331 HOH WAT . C 3 HOH A 133 332 332 HOH WAT . C 3 HOH A 134 333 333 HOH WAT . C 3 HOH A 135 334 334 HOH WAT . C 3 HOH A 136 335 335 HOH WAT . C 3 HOH A 137 336 336 HOH WAT . C 3 HOH A 138 337 337 HOH WAT . C 3 HOH A 139 338 338 HOH WAT . # 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' U2P . . . B 2 28.636 23.899 37.148 1 44.94 ? O5' U2P 400 A 1 HETATM 2 C C5' U2P . . . B 2 27.831 25.09 37.341 1 42.94 ? C5' U2P 400 A 1 HETATM 3 C C4' U2P . . . B 2 26.722 25.143 36.281 1 41.82 ? C4' U2P 400 A 1 HETATM 4 O O4' U2P . . . B 2 25.884 26.377 36.481 1 39.6 ? O4' U2P 400 A 1 HETATM 5 C C1' U2P . . . B 2 25.891 27.364 35.333 1 38.02 ? C1' U2P 400 A 1 HETATM 6 N N1 U2P . . . B 2 26.505 28.711 35.597 1 31.25 ? N1 U2P 400 A 1 HETATM 7 C C6 U2P . . . B 2 25.578 29.687 35.677 1 29.61 ? C6 U2P 400 A 1 HETATM 8 C C5 U2P . . . B 2 25.927 31.027 35.923 1 24.06 ? C5 U2P 400 A 1 HETATM 9 C C4 U2P . . . B 2 27.343 31.366 36.098 1 24.39 ? C4 U2P 400 A 1 HETATM 10 O O4 U2P . . . B 2 27.722 32.506 36.315 1 19.67 ? O4 U2P 400 A 1 HETATM 11 N N3 U2P . . . B 2 28.245 30.287 35.998 1 24.62 ? N3 U2P 400 A 1 HETATM 12 C C2 U2P . . . B 2 27.911 28.949 35.752 1 29.71 ? C2 U2P 400 A 1 HETATM 13 O O2 U2P . . . B 2 28.794 28.105 35.69 1 29.32 ? O2 U2P 400 A 1 HETATM 14 C C2' U2P . . . B 2 26.338 26.44 34.191 1 41.19 ? C2' U2P 400 A 1 HETATM 15 O O2' U2P . . . B 2 25.192 25.697 33.698 1 44.55 ? O2' U2P 400 A 1 HETATM 16 P P U2P . . . B 2 24.137 26.297 32.693 1 47.61 ? P U2P 400 A 1 HETATM 17 O O1P U2P . . . B 2 23.993 26.076 31.257 1 47.58 ? O1P U2P 400 A 1 HETATM 18 O O2P U2P . . . B 2 22.907 26.708 33.427 1 47.64 ? O2P U2P 400 A 1 HETATM 19 O O3P U2P . . . B 2 23.637 24.924 32.671 1 48.75 ? O3P U2P 400 A 1 HETATM 20 C C3' U2P . . . B 2 27.286 25.439 34.873 1 41.95 ? C3' U2P 400 A 1 HETATM 21 O O3' U2P . . . B 2 27.292 24.203 34.066 1 43.35 ? O3' U2P 400 A 1 # _model_server_stats.io_time_ms 55 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 21 #