data_4P83 # _model_server_result.job_id adPT6twtyHTSvNa_tflGKw _model_server_result.datetime_utc '2024-12-21 17:56:51' _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 4p83 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":201}' # _entry.id 4P83 # _exptl.entry_id 4P83 _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 "URIDINE-5'-MONOPHOSPHATE" _entity.pdbx_number_of_molecules 4 _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 4P83 _cell.length_a 77.15 _cell.length_b 77.15 _cell.length_c 286.77 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4P83 _symmetry.cell_setting . _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details Tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,E,F,G,H,I,J,K,L _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N # _chem_comp.formula 'C9 H13 N2 O9 P' _chem_comp.formula_weight 324.181 _chem_comp.id U5P _chem_comp.mon_nstd_flag . _chem_comp.name "URIDINE-5'-MONOPHOSPHATE" _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 U5P sing 330 n n N1 C6 U5P sing 331 n n N1 C1' U5P sing 332 n n C2 N3 U5P sing 333 n n C2 O2 U5P doub 334 n n N3 C4 U5P sing 335 n n N3 HN3 U5P sing 336 n n C4 C5 U5P sing 337 n n C4 O4 U5P doub 338 n n C5 C6 U5P doub 339 n n C5 H5 U5P sing 340 n n C6 H6 U5P sing 341 n n C1' C2' U5P sing 342 n n C1' O4' U5P sing 343 n n C1' H1' U5P sing 344 n n C2' O2' U5P sing 345 n n C2' C3' U5P sing 346 n n C2' H2' U5P sing 347 n n O2' HO2' U5P sing 348 n n C3' C4' U5P sing 349 n n C3' O3' U5P sing 350 n n C3' H3' U5P sing 351 n n C4' O4' U5P sing 352 n n C4' C5' U5P sing 353 n n C4' H4' U5P sing 354 n n O3' HO3' U5P sing 355 n n C5' O5' U5P sing 356 n n C5' "H5'1" U5P sing 357 n n C5' "H5'2" U5P sing 358 n n O5' P U5P sing 359 n n P O1P U5P doub 360 n n P O2P U5P sing 361 n n P O3P U5P sing 362 n n O2P HOP2 U5P sing 363 n n O3P HOP3 U5P sing 364 n n # _atom_sites.entry_id 4P83 _atom_sites.fract_transf_matrix[1][1] 0.012962 _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] 0.012962 _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] 0.003487 _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 E 2 U5P A 1 201 3 U5P U5P . F 2 U5P B 1 201 2 U5P U5P . G 2 U5P C 1 201 4 U5P U5P . H 2 U5P D 1 201 1 U5P U5P . I 3 HOH A 1 301 145 HOH HOH . I 3 HOH A 2 302 165 HOH HOH . I 3 HOH A 3 303 25 HOH HOH . I 3 HOH A 4 304 108 HOH HOH . I 3 HOH A 5 305 142 HOH HOH . I 3 HOH A 6 306 3 HOH HOH . I 3 HOH A 7 307 7 HOH HOH . I 3 HOH A 8 308 17 HOH HOH . I 3 HOH A 9 309 19 HOH HOH . I 3 HOH A 10 310 24 HOH HOH . I 3 HOH A 11 311 28 HOH HOH . I 3 HOH A 12 312 37 HOH HOH . I 3 HOH A 13 313 38 HOH HOH . I 3 HOH A 14 314 56 HOH HOH . I 3 HOH A 15 315 59 HOH HOH . I 3 HOH A 16 316 68 HOH HOH . I 3 HOH A 17 317 70 HOH HOH . I 3 HOH A 18 318 73 HOH HOH . I 3 HOH A 19 319 74 HOH HOH . I 3 HOH A 20 320 85 HOH HOH . I 3 HOH A 21 321 95 HOH HOH . I 3 HOH A 22 322 107 HOH HOH . I 3 HOH A 23 323 112 HOH HOH . I 3 HOH A 24 324 120 HOH HOH . I 3 HOH A 25 325 121 HOH HOH . I 3 HOH A 26 326 131 HOH HOH . I 3 HOH A 27 327 137 HOH HOH . I 3 HOH A 28 328 138 HOH HOH . I 3 HOH A 29 329 144 HOH HOH . I 3 HOH A 30 330 151 HOH HOH . I 3 HOH A 31 331 154 HOH HOH . I 3 HOH A 32 332 156 HOH HOH . J 3 HOH B 1 301 79 HOH HOH . J 3 HOH B 2 302 2 HOH HOH . J 3 HOH B 3 303 6 HOH HOH . J 3 HOH B 4 304 13 HOH HOH . J 3 HOH B 5 305 15 HOH HOH . J 3 HOH B 6 306 18 HOH HOH . J 3 HOH B 7 307 23 HOH HOH . J 3 HOH B 8 308 26 HOH HOH . J 3 HOH B 9 309 30 HOH HOH . J 3 HOH B 10 310 31 HOH HOH . J 3 HOH B 11 311 33 HOH HOH . J 3 HOH B 12 312 34 HOH HOH . J 3 HOH B 13 313 40 HOH HOH . J 3 HOH B 14 314 41 HOH HOH . J 3 HOH B 15 315 62 HOH HOH . J 3 HOH B 16 316 66 HOH HOH . J 3 HOH B 17 317 67 HOH HOH . J 3 HOH B 18 318 77 HOH HOH . J 3 HOH B 19 319 78 HOH HOH . J 3 HOH B 20 320 80 HOH HOH . J 3 HOH B 21 321 82 HOH HOH . J 3 HOH B 22 322 86 HOH HOH . J 3 HOH B 23 323 89 HOH HOH . J 3 HOH B 24 324 98 HOH HOH . J 3 HOH B 25 325 139 HOH HOH . J 3 HOH B 26 326 141 HOH HOH . J 3 HOH B 27 327 152 HOH HOH . J 3 HOH B 28 328 159 HOH HOH . J 3 HOH B 29 329 161 HOH HOH . K 3 HOH C 1 301 91 HOH HOH . K 3 HOH C 2 302 53 HOH HOH . K 3 HOH C 3 303 55 HOH HOH . K 3 HOH C 4 304 172 HOH HOH . K 3 HOH C 5 305 93 HOH HOH . K 3 HOH C 6 306 147 HOH HOH . K 3 HOH C 7 307 1 HOH HOH . K 3 HOH C 8 308 4 HOH HOH . K 3 HOH C 9 309 5 HOH HOH . K 3 HOH C 10 310 11 HOH HOH . K 3 HOH C 11 311 12 HOH HOH . K 3 HOH C 12 312 14 HOH HOH . K 3 HOH C 13 313 20 HOH HOH . K 3 HOH C 14 314 39 HOH HOH . K 3 HOH C 15 315 44 HOH HOH . K 3 HOH C 16 316 45 HOH HOH . K 3 HOH C 17 317 48 HOH HOH . K 3 HOH C 18 318 49 HOH HOH . K 3 HOH C 19 319 52 HOH HOH . K 3 HOH C 20 320 58 HOH HOH . K 3 HOH C 21 321 60 HOH HOH . K 3 HOH C 22 322 63 HOH HOH . K 3 HOH C 23 323 76 HOH HOH . K 3 HOH C 24 324 83 HOH HOH . K 3 HOH C 25 325 84 HOH HOH . K 3 HOH C 26 326 90 HOH HOH . K 3 HOH C 27 327 92 HOH HOH . K 3 HOH C 28 328 111 HOH HOH . K 3 HOH C 29 329 114 HOH HOH . K 3 HOH C 30 330 117 HOH HOH . K 3 HOH C 31 331 119 HOH HOH . K 3 HOH C 32 332 123 HOH HOH . K 3 HOH C 33 333 127 HOH HOH . K 3 HOH C 34 334 129 HOH HOH . K 3 HOH C 35 335 132 HOH HOH . K 3 HOH C 36 336 136 HOH HOH . K 3 HOH C 37 337 146 HOH HOH . K 3 HOH C 38 338 150 HOH HOH . K 3 HOH C 39 339 155 HOH HOH . K 3 HOH C 40 340 158 HOH HOH . K 3 HOH C 41 341 168 HOH HOH . K 3 HOH C 42 342 173 HOH HOH . L 3 HOH D 1 301 115 HOH HOH . L 3 HOH D 2 302 99 HOH HOH . L 3 HOH D 3 303 8 HOH HOH . L 3 HOH D 4 304 9 HOH HOH . L 3 HOH D 5 305 10 HOH HOH . L 3 HOH D 6 306 16 HOH HOH . L 3 HOH D 7 307 35 HOH HOH . L 3 HOH D 8 308 36 HOH HOH . L 3 HOH D 9 309 42 HOH HOH . L 3 HOH D 10 310 46 HOH HOH . L 3 HOH D 11 311 47 HOH HOH . L 3 HOH D 12 312 51 HOH HOH . L 3 HOH D 13 313 64 HOH HOH . L 3 HOH D 14 314 65 HOH HOH . L 3 HOH D 15 315 69 HOH HOH . L 3 HOH D 16 316 72 HOH HOH . L 3 HOH D 17 317 75 HOH HOH . L 3 HOH D 18 318 81 HOH HOH . L 3 HOH D 19 319 88 HOH HOH . L 3 HOH D 20 320 94 HOH HOH . L 3 HOH D 21 321 96 HOH HOH . L 3 HOH D 22 322 97 HOH HOH . L 3 HOH D 23 323 106 HOH HOH . L 3 HOH D 24 324 116 HOH HOH . L 3 HOH D 25 325 122 HOH HOH . L 3 HOH D 26 326 124 HOH HOH . L 3 HOH D 27 327 125 HOH HOH . L 3 HOH D 28 328 134 HOH HOH . L 3 HOH D 29 329 135 HOH HOH . L 3 HOH D 30 330 140 HOH HOH . L 3 HOH D 31 331 170 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 U5P . . . H 2 -42.454 22.332 29.799 1 40.36 ? N1 U5P 201 D 1 HETATM 2 C C2 U5P . . . H 2 -42.314 23.144 28.663 1 42.16 ? C2 U5P 201 D 1 HETATM 3 N N3 U5P . . . H 2 -41.194 23.158 27.962 1 38.84 ? N3 U5P 201 D 1 HETATM 4 C C4 U5P . . . H 2 -40.161 22.383 28.337 1 39.24 ? C4 U5P 201 D 1 HETATM 5 C C5 U5P . . . H 2 -40.258 21.589 29.452 1 36.26 ? C5 U5P 201 D 1 HETATM 6 C C6 U5P . . . H 2 -41.434 21.564 30.172 1 37.75 ? C6 U5P 201 D 1 HETATM 7 O O2 U5P . . . H 2 -43.285 23.822 28.307 1 49.2 ? O2 U5P 201 D 1 HETATM 8 O O4 U5P . . . H 2 -39.066 22.372 27.717 1 39.81 ? O4 U5P 201 D 1 HETATM 9 C C1' U5P . . . H 2 -43.734 22.303 30.495 1 37.22 ? C1' U5P 201 D 1 HETATM 10 C C2' U5P . . . H 2 -44.752 21.626 29.607 1 36.98 ? C2' U5P 201 D 1 HETATM 11 O O2' U5P . . . H 2 -45.796 22.477 29.223 1 36.6 ? O2' U5P 201 D 1 HETATM 12 C C3' U5P . . . H 2 -45.365 20.473 30.386 1 35.55 ? C3' U5P 201 D 1 HETATM 13 C C4' U5P . . . H 2 -44.391 20.234 31.492 1 35.32 ? C4' U5P 201 D 1 HETATM 14 O O3' U5P . . . H 2 -46.658 20.776 30.874 1 35.09 ? O3' U5P 201 D 1 HETATM 15 O O4' U5P . . . H 2 -43.706 21.457 31.648 1 39.24 ? O4' U5P 201 D 1 HETATM 16 C C5' U5P . . . H 2 -43.404 19.153 31.086 1 36.56 ? C5' U5P 201 D 1 HETATM 17 O O5' U5P . . . H 2 -42.303 19.043 31.982 1 32.59 ? O5' U5P 201 D 1 HETATM 18 P P U5P . . . H 2 -42.162 17.71 32.852 1 36.8 ? P U5P 201 D 1 HETATM 19 O O1P U5P . . . H 2 -40.728 17.809 33.263 1 32.68 ? O1P U5P 201 D 1 HETATM 20 O O2P U5P . . . H 2 -43.186 17.736 33.984 1 38.59 ? O2P U5P 201 D 1 HETATM 21 O O3P U5P . . . H 2 -42.456 16.589 31.888 1 39.45 ? O3P U5P 201 D 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 500 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 21 #