data_4RSK # _model_server_result.job_id bYTfMsgzqLGrqblC_Sjx6g _model_server_result.datetime_utc '2025-07-14 03:32:46' _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 4rsk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":125}' # _entry.id 4RSK # _exptl.entry_id 4RSK _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 "3'-URIDINEMONOPHOSPHATE" _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 120 _cell.entry_id 4RSK _cell.length_a 69.62 _cell.length_b 69.62 _cell.length_c 66.98 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4RSK _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 1' # _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 26 A CYS 26 1_555 A SG CYS 84 A CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf2 A SG CYS 40 A CYS 40 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf3 A SG CYS 58 A CYS 58 1_555 A SG CYS 110 A CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf4 A SG CYS 65 A CYS 65 1_555 A SG CYS 72 A CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? # _chem_comp.formula 'C9 H13 N2 O9 P' _chem_comp.formula_weight 324.181 _chem_comp.id U3P _chem_comp.mon_nstd_flag . _chem_comp.name "3'-URIDINEMONOPHOSPHATE" _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 N1 C2 U3P sing 330 n n N1 C6 U3P sing 331 n n N1 C1' U3P sing 332 n n C2 N3 U3P sing 333 n n C2 O2 U3P doub 334 n n N3 C4 U3P sing 335 n n N3 HN3 U3P sing 336 n n C4 C5 U3P sing 337 n n C4 O4 U3P doub 338 n n C5 C6 U3P doub 339 n n C5 H5 U3P sing 340 n n C6 H6 U3P sing 341 n n P O1P U3P sing 342 n n P O2P U3P doub 343 n n P O3P U3P sing 344 n n P O3' U3P sing 345 n n O1P HOP1 U3P sing 346 n n O3P HOP3 U3P sing 347 n n O5' C5' U3P sing 348 n n O5' HO5' U3P sing 349 n n C5' C4' U3P sing 350 n n C5' "H5'1" U3P sing 351 n n C5' "H5'2" U3P sing 352 n n C4' O4' U3P sing 353 n n C4' C3' U3P sing 354 n n C4' H4' U3P sing 355 n n O4' C1' U3P sing 356 n n C3' O3' U3P sing 357 n n C3' C2' U3P sing 358 n n C3' H3' U3P sing 359 n n C2' O2' U3P sing 360 n n C2' C1' U3P sing 361 n n C2' H2' U3P sing 362 n n O2' HO2' U3P sing 363 n n C1' H1' U3P sing 364 n n # _atom_sites.entry_id 4RSK _atom_sites.fract_transf_matrix[1][1] 0.014364 _atom_sites.fract_transf_matrix[1][2] 0.008293 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016586 _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] 0.01493 _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 U3P A 1 125 125 U3P U3P . C 3 HOH A 1 201 201 HOH HOH . C 3 HOH A 2 202 202 HOH HOH . C 3 HOH A 3 203 203 HOH HOH . C 3 HOH A 4 204 204 HOH HOH . C 3 HOH A 5 205 205 HOH HOH . C 3 HOH A 6 206 206 HOH HOH . C 3 HOH A 7 207 207 HOH HOH . C 3 HOH A 8 208 208 HOH HOH . C 3 HOH A 9 209 209 HOH HOH . C 3 HOH A 10 210 210 HOH HOH . C 3 HOH A 11 211 211 HOH HOH . C 3 HOH A 12 212 212 HOH HOH . C 3 HOH A 13 213 213 HOH HOH . C 3 HOH A 14 214 214 HOH HOH . C 3 HOH A 15 215 215 HOH HOH . C 3 HOH A 16 216 216 HOH HOH . C 3 HOH A 17 217 217 HOH HOH . C 3 HOH A 18 218 218 HOH HOH . C 3 HOH A 19 219 219 HOH HOH . C 3 HOH A 20 220 220 HOH HOH . C 3 HOH A 21 221 221 HOH HOH . C 3 HOH A 22 222 222 HOH HOH . C 3 HOH A 23 223 223 HOH HOH . C 3 HOH A 24 224 224 HOH HOH . C 3 HOH A 25 225 225 HOH HOH . C 3 HOH A 26 226 226 HOH HOH . C 3 HOH A 27 227 227 HOH HOH . C 3 HOH A 28 228 228 HOH HOH . C 3 HOH A 29 229 229 HOH HOH . C 3 HOH A 30 230 230 HOH HOH . C 3 HOH A 31 231 231 HOH HOH . C 3 HOH A 32 232 232 HOH HOH . C 3 HOH A 33 233 233 HOH HOH . C 3 HOH A 34 234 234 HOH HOH . C 3 HOH A 35 235 235 HOH HOH . C 3 HOH A 36 236 236 HOH HOH . C 3 HOH A 37 237 237 HOH HOH . C 3 HOH A 38 238 238 HOH HOH . C 3 HOH A 39 239 239 HOH HOH . C 3 HOH A 40 240 240 HOH HOH . C 3 HOH A 41 241 241 HOH HOH . C 3 HOH A 42 242 242 HOH HOH . C 3 HOH A 43 243 243 HOH HOH . C 3 HOH A 44 244 244 HOH HOH . C 3 HOH A 45 245 245 HOH HOH . C 3 HOH A 46 246 246 HOH HOH . C 3 HOH A 47 247 247 HOH HOH . C 3 HOH A 48 248 248 HOH HOH . C 3 HOH A 49 249 249 HOH HOH . C 3 HOH A 50 250 250 HOH HOH . C 3 HOH A 51 251 251 HOH HOH . C 3 HOH A 52 252 252 HOH HOH . C 3 HOH A 53 253 253 HOH HOH . C 3 HOH A 54 254 254 HOH HOH . C 3 HOH A 55 255 255 HOH HOH . C 3 HOH A 56 256 256 HOH HOH . C 3 HOH A 57 257 257 HOH HOH . C 3 HOH A 58 258 258 HOH HOH . C 3 HOH A 59 259 259 HOH HOH . C 3 HOH A 60 260 260 HOH HOH . C 3 HOH A 61 261 261 HOH HOH . C 3 HOH A 62 262 262 HOH HOH . C 3 HOH A 63 263 263 HOH HOH . C 3 HOH A 64 264 264 HOH HOH . C 3 HOH A 65 265 265 HOH HOH . C 3 HOH A 66 266 266 HOH HOH . C 3 HOH A 67 267 267 HOH HOH . C 3 HOH A 68 268 268 HOH HOH . C 3 HOH A 69 269 269 HOH HOH . C 3 HOH A 70 270 270 HOH HOH . C 3 HOH A 71 271 271 HOH HOH . C 3 HOH A 72 272 272 HOH HOH . C 3 HOH A 73 273 273 HOH HOH . C 3 HOH A 74 274 274 HOH HOH . C 3 HOH A 75 275 275 HOH HOH . C 3 HOH A 76 276 276 HOH HOH . C 3 HOH A 77 277 277 HOH HOH . C 3 HOH A 78 278 278 HOH HOH . C 3 HOH A 79 279 279 HOH HOH . C 3 HOH A 80 280 280 HOH HOH . C 3 HOH A 81 281 281 HOH HOH . C 3 HOH A 82 282 282 HOH HOH . C 3 HOH A 83 283 283 HOH HOH . C 3 HOH A 84 284 284 HOH HOH . C 3 HOH A 85 285 285 HOH HOH . C 3 HOH A 86 286 286 HOH HOH . C 3 HOH A 87 287 287 HOH HOH . C 3 HOH A 88 288 288 HOH HOH . C 3 HOH A 89 289 289 HOH HOH . C 3 HOH A 90 290 290 HOH HOH . C 3 HOH A 91 291 291 HOH HOH . C 3 HOH A 92 292 292 HOH HOH . C 3 HOH A 93 293 293 HOH HOH . C 3 HOH A 94 294 294 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 U3P . . . B 2 -17.478 40.551 26.994 1 36 ? N1 U3P 125 A 1 HETATM 2 C C2 U3P . . . B 2 -16.466 39.667 27.305 1 22.79 ? C2 U3P 125 A 1 HETATM 3 N N3 U3P . . . B 2 -16.488 38.479 26.618 1 27.82 ? N3 U3P 125 A 1 HETATM 4 C C4 U3P . . . B 2 -17.388 38.109 25.633 1 42.47 ? C4 U3P 125 A 1 HETATM 5 C C5 U3P . . . B 2 -18.428 39.083 25.38 1 37.3 ? C5 U3P 125 A 1 HETATM 6 C C6 U3P . . . B 2 -18.44 40.246 26.059 1 34.6 ? C6 U3P 125 A 1 HETATM 7 O O2 U3P . . . B 2 -15.616 39.894 28.138 1 27.75 ? O2 U3P 125 A 1 HETATM 8 O O4 U3P . . . B 2 -17.26 37.022 25.057 1 37.9 ? O4 U3P 125 A 1 HETATM 9 P P U3P . . . B 2 -15.883 45.662 25.882 1 52.71 ? P U3P 125 A 1 HETATM 10 O O1P U3P . . . B 2 -15.657 44.948 24.601 1 48.89 ? O1P U3P 125 A 1 HETATM 11 O O2P U3P . . . B 2 -14.821 45.28 26.837 1 30.57 ? O2P U3P 125 A 1 HETATM 12 O O3P U3P . . . B 2 -16.066 47.129 25.742 1 39.16 ? O3P U3P 125 A 1 HETATM 13 O O5' U3P . . . B 2 -21.453 43.444 26.672 1 79.49 ? O5' U3P 125 A 1 HETATM 14 C C5' U3P . . . B 2 -20.182 43.731 26.089 1 45.04 ? C5' U3P 125 A 1 HETATM 15 C C4' U3P . . . B 2 -19.013 43.595 27.075 1 41.09 ? C4' U3P 125 A 1 HETATM 16 O O4' U3P . . . B 2 -18.956 42.255 27.655 1 41.63 ? O4' U3P 125 A 1 HETATM 17 C C3' U3P . . . B 2 -17.648 43.78 26.407 1 48.12 ? C3' U3P 125 A 1 HETATM 18 O O3' U3P . . . B 2 -17.288 45.161 26.459 1 47.57 ? O3' U3P 125 A 1 HETATM 19 C C2' U3P . . . B 2 -16.695 42.92 27.249 1 34.69 ? C2' U3P 125 A 1 HETATM 20 O O2' U3P . . . B 2 -16.211 43.596 28.406 1 37.87 ? O2' U3P 125 A 1 HETATM 21 C C1' U3P . . . B 2 -17.608 41.807 27.731 1 32.14 ? C1' U3P 125 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 581 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 21 #