data_5XTK # _model_server_result.job_id uKdvvtXFXT-9VaKWczxq8A _model_server_result.datetime_utc '2024-11-24 22:54:41' _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 5xtk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":302}' # _entry.id 5XTK # _exptl.entry_id 5XTK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 363.221 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-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 5XTK _cell.length_a 66.557 _cell.length_b 66.557 _cell.length_c 165.379 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5XTK _symmetry.cell_setting ? _symmetry.Int_Tables_number 95 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 2 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 _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' 5_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H14 N5 O8 P' _chem_comp.formula_weight 363.221 _chem_comp.id 5GP _chem_comp.mon_nstd_flag . _chem_comp.name "GUANOSINE-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 P O1P 5GP doub 1 n n P O2P 5GP sing 2 n n P O3P 5GP sing 3 n n P O5' 5GP sing 4 n n O2P HOP2 5GP sing 5 n n O3P HOP3 5GP sing 6 n n O5' C5' 5GP sing 7 n n C5' C4' 5GP sing 8 n n C5' "H5'1" 5GP sing 9 n n C5' "H5'2" 5GP sing 10 n n C4' O4' 5GP sing 11 n n C4' C3' 5GP sing 12 n n C4' H4' 5GP sing 13 n n O4' C1' 5GP sing 14 n n C3' O3' 5GP sing 15 n n C3' C2' 5GP sing 16 n n C3' H3' 5GP sing 17 n n O3' HO3' 5GP sing 18 n n C2' O2' 5GP sing 19 n n C2' C1' 5GP sing 20 n n C2' H2' 5GP sing 21 n n O2' HO2' 5GP sing 22 n n C1' N9 5GP sing 23 n n C1' H1' 5GP sing 24 n n N9 C8 5GP sing 25 n y N9 C4 5GP sing 26 n y C8 N7 5GP doub 27 n y C8 H8 5GP sing 28 n n N7 C5 5GP sing 29 n y C5 C6 5GP sing 30 n n C5 C4 5GP doub 31 n y C6 O6 5GP doub 32 n n C6 N1 5GP sing 33 n n N1 C2 5GP sing 34 n n N1 HN1 5GP sing 35 n n C2 N2 5GP sing 36 n n C2 N3 5GP doub 37 n n N2 HN21 5GP sing 38 n n N2 HN22 5GP sing 39 n n N3 C4 5GP sing 40 n n # _atom_sites.entry_id 5XTK _atom_sites.fract_transf_matrix[1][1] 0.015025 _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] 0.015025 _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] 0.006047 _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 C 2 SO4 A 1 301 301 SO4 SO4 . D 3 5GP A 1 302 302 5GP 5GP . E 4 HOH A 1 401 125 HOH HOH . E 4 HOH A 2 402 144 HOH HOH . E 4 HOH A 3 403 126 HOH HOH . E 4 HOH A 4 404 87 HOH HOH . E 4 HOH A 5 405 96 HOH HOH . E 4 HOH A 6 406 115 HOH HOH . E 4 HOH A 7 407 134 HOH HOH . E 4 HOH A 8 408 95 HOH HOH . E 4 HOH A 9 409 174 HOH HOH . E 4 HOH A 10 410 5 HOH HOH . E 4 HOH A 11 411 53 HOH HOH . E 4 HOH A 12 412 133 HOH HOH . E 4 HOH A 13 413 102 HOH HOH . E 4 HOH A 14 414 2 HOH HOH . E 4 HOH A 15 415 22 HOH HOH . E 4 HOH A 16 416 20 HOH HOH . E 4 HOH A 17 417 146 HOH HOH . E 4 HOH A 18 418 157 HOH HOH . E 4 HOH A 19 419 130 HOH HOH . E 4 HOH A 20 420 170 HOH HOH . E 4 HOH A 21 421 16 HOH HOH . E 4 HOH A 22 422 162 HOH HOH . E 4 HOH A 23 423 77 HOH HOH . E 4 HOH A 24 424 51 HOH HOH . E 4 HOH A 25 425 176 HOH HOH . E 4 HOH A 26 426 132 HOH HOH . E 4 HOH A 27 427 13 HOH HOH . E 4 HOH A 28 428 7 HOH HOH . E 4 HOH A 29 429 85 HOH HOH . E 4 HOH A 30 430 29 HOH HOH . E 4 HOH A 31 431 34 HOH HOH . E 4 HOH A 32 432 62 HOH HOH . E 4 HOH A 33 433 61 HOH HOH . E 4 HOH A 34 434 124 HOH HOH . E 4 HOH A 35 435 21 HOH HOH . E 4 HOH A 36 436 143 HOH HOH . E 4 HOH A 37 437 169 HOH HOH . E 4 HOH A 38 438 118 HOH HOH . E 4 HOH A 39 439 15 HOH HOH . E 4 HOH A 40 440 158 HOH HOH . E 4 HOH A 41 441 33 HOH HOH . E 4 HOH A 42 442 72 HOH HOH . E 4 HOH A 43 443 112 HOH HOH . E 4 HOH A 44 444 55 HOH HOH . E 4 HOH A 45 445 56 HOH HOH . E 4 HOH A 46 446 101 HOH HOH . E 4 HOH A 47 447 49 HOH HOH . E 4 HOH A 48 448 153 HOH HOH . E 4 HOH A 49 449 17 HOH HOH . E 4 HOH A 50 450 54 HOH HOH . E 4 HOH A 51 451 4 HOH HOH . E 4 HOH A 52 452 36 HOH HOH . E 4 HOH A 53 453 59 HOH HOH . E 4 HOH A 54 454 131 HOH HOH . E 4 HOH A 55 455 116 HOH HOH . E 4 HOH A 56 456 45 HOH HOH . E 4 HOH A 57 457 111 HOH HOH . E 4 HOH A 58 458 81 HOH HOH . E 4 HOH A 59 459 73 HOH HOH . E 4 HOH A 60 460 86 HOH HOH . E 4 HOH A 61 461 90 HOH HOH . E 4 HOH A 62 462 9 HOH HOH . E 4 HOH A 63 463 98 HOH HOH . E 4 HOH A 64 464 18 HOH HOH . E 4 HOH A 65 465 6 HOH HOH . E 4 HOH A 66 466 46 HOH HOH . E 4 HOH A 67 467 38 HOH HOH . E 4 HOH A 68 468 14 HOH HOH . E 4 HOH A 69 469 155 HOH HOH . E 4 HOH A 70 470 119 HOH HOH . E 4 HOH A 71 471 148 HOH HOH . E 4 HOH A 72 472 150 HOH HOH . E 4 HOH A 73 473 30 HOH HOH . E 4 HOH A 74 474 25 HOH HOH . E 4 HOH A 75 475 78 HOH HOH . E 4 HOH A 76 476 43 HOH HOH . E 4 HOH A 77 477 50 HOH HOH . E 4 HOH A 78 478 136 HOH HOH . E 4 HOH A 79 479 42 HOH HOH . E 4 HOH A 80 480 168 HOH HOH . E 4 HOH A 81 481 159 HOH HOH . E 4 HOH A 82 482 164 HOH HOH . E 4 HOH A 83 483 40 HOH HOH . E 4 HOH A 84 484 92 HOH HOH . E 4 HOH A 85 485 141 HOH HOH . E 4 HOH A 86 486 161 HOH HOH . E 4 HOH A 87 487 104 HOH HOH . F 4 HOH B 1 201 163 HOH HOH . F 4 HOH B 2 202 152 HOH HOH . F 4 HOH B 3 203 109 HOH HOH . F 4 HOH B 4 204 68 HOH HOH . F 4 HOH B 5 205 93 HOH HOH . F 4 HOH B 6 206 117 HOH HOH . F 4 HOH B 7 207 97 HOH HOH . F 4 HOH B 8 208 67 HOH HOH . F 4 HOH B 9 209 94 HOH HOH . F 4 HOH B 10 210 114 HOH HOH . F 4 HOH B 11 211 172 HOH HOH . F 4 HOH B 12 212 122 HOH HOH . F 4 HOH B 13 213 135 HOH HOH . F 4 HOH B 14 214 12 HOH HOH . F 4 HOH B 15 215 24 HOH HOH . F 4 HOH B 16 216 138 HOH HOH . F 4 HOH B 17 217 23 HOH HOH . F 4 HOH B 18 218 166 HOH HOH . F 4 HOH B 19 219 82 HOH HOH . F 4 HOH B 20 220 74 HOH HOH . F 4 HOH B 21 221 145 HOH HOH . F 4 HOH B 22 222 28 HOH HOH . F 4 HOH B 23 223 66 HOH HOH . F 4 HOH B 24 224 35 HOH HOH . F 4 HOH B 25 225 44 HOH HOH . F 4 HOH B 26 226 37 HOH HOH . F 4 HOH B 27 227 58 HOH HOH . F 4 HOH B 28 228 110 HOH HOH . F 4 HOH B 29 229 3 HOH HOH . F 4 HOH B 30 230 60 HOH HOH . F 4 HOH B 31 231 41 HOH HOH . F 4 HOH B 32 232 65 HOH HOH . F 4 HOH B 33 233 137 HOH HOH . F 4 HOH B 34 234 89 HOH HOH . F 4 HOH B 35 235 171 HOH HOH . F 4 HOH B 36 236 127 HOH HOH . F 4 HOH B 37 237 173 HOH HOH . F 4 HOH B 38 238 64 HOH HOH . F 4 HOH B 39 239 75 HOH HOH . F 4 HOH B 40 240 47 HOH HOH . F 4 HOH B 41 241 84 HOH HOH . F 4 HOH B 42 242 8 HOH HOH . F 4 HOH B 43 243 57 HOH HOH . F 4 HOH B 44 244 39 HOH HOH . F 4 HOH B 45 245 80 HOH HOH . F 4 HOH B 46 246 19 HOH HOH . F 4 HOH B 47 247 113 HOH HOH . F 4 HOH B 48 248 27 HOH HOH . F 4 HOH B 49 249 79 HOH HOH . F 4 HOH B 50 250 91 HOH HOH . F 4 HOH B 51 251 11 HOH HOH . F 4 HOH B 52 252 177 HOH HOH . F 4 HOH B 53 253 83 HOH HOH . F 4 HOH B 54 254 100 HOH HOH . F 4 HOH B 55 255 175 HOH HOH . F 4 HOH B 56 256 63 HOH HOH . F 4 HOH B 57 257 26 HOH HOH . F 4 HOH B 58 258 120 HOH HOH . F 4 HOH B 59 259 156 HOH HOH . F 4 HOH B 60 260 179 HOH HOH . F 4 HOH B 61 261 69 HOH HOH . F 4 HOH B 62 262 1 HOH HOH . F 4 HOH B 63 263 88 HOH HOH . F 4 HOH B 64 264 52 HOH HOH . F 4 HOH B 65 265 10 HOH HOH . F 4 HOH B 66 266 31 HOH HOH . F 4 HOH B 67 267 167 HOH HOH . F 4 HOH B 68 268 154 HOH HOH . F 4 HOH B 69 269 76 HOH HOH . F 4 HOH B 70 270 103 HOH HOH . F 4 HOH B 71 271 108 HOH HOH . F 4 HOH B 72 272 123 HOH HOH . F 4 HOH B 73 273 99 HOH HOH . F 4 HOH B 74 274 147 HOH HOH . F 4 HOH B 75 275 106 HOH HOH . F 4 HOH B 76 276 178 HOH HOH . F 4 HOH B 77 277 48 HOH HOH . F 4 HOH B 78 278 121 HOH HOH . F 4 HOH B 79 279 71 HOH HOH . F 4 HOH B 80 280 129 HOH HOH . F 4 HOH B 81 281 105 HOH HOH . F 4 HOH B 82 282 140 HOH HOH . F 4 HOH B 83 283 142 HOH HOH . F 4 HOH B 84 284 32 HOH HOH . F 4 HOH B 85 285 149 HOH HOH . F 4 HOH B 86 286 139 HOH HOH . F 4 HOH B 87 287 151 HOH HOH . F 4 HOH B 88 288 165 HOH HOH . F 4 HOH B 89 289 160 HOH HOH . F 4 HOH B 90 290 107 HOH HOH . F 4 HOH B 91 291 128 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 5GP . . . D 3 -19.986 -19.743 -16.364 1 19.15 ? P 5GP 302 A 1 HETATM 2 O O1P 5GP . . . D 3 -19.917 -19.668 -17.865 1 18.1 ? O1P 5GP 302 A 1 HETATM 3 O O2P 5GP . . . D 3 -20.752 -18.611 -15.699 1 18.83 ? O2P 5GP 302 A 1 HETATM 4 O O3P 5GP . . . D 3 -20.387 -21.059 -15.821 1 19.55 ? O3P 5GP 302 A 1 HETATM 5 O O5' 5GP . . . D 3 -18.468 -19.46 -15.919 1 21.12 ? O5' 5GP 302 A 1 HETATM 6 C C5' 5GP . . . D 3 -17.758 -18.352 -16.516 1 26.68 ? C5' 5GP 302 A 1 HETATM 7 C C4' 5GP . . . D 3 -16.244 -18.468 -16.309 1 30.75 ? C4' 5GP 302 A 1 HETATM 8 O O4' 5GP . . . D 3 -15.924 -17.772 -15.099 1 31.07 ? O4' 5GP 302 A 1 HETATM 9 C C3' 5GP . . . D 3 -15.737 -19.906 -16.182 1 34.69 ? C3' 5GP 302 A 1 HETATM 10 O O3' 5GP . . . D 3 -14.715 -20.206 -17.155 1 38.32 ? O3' 5GP 302 A 1 HETATM 11 C C2' 5GP . . . D 3 -15.066 -19.944 -14.838 1 33.5 ? C2' 5GP 302 A 1 HETATM 12 O O2' 5GP . . . D 3 -13.718 -20.391 -14.962 1 39.26 ? O2' 5GP 302 A 1 HETATM 13 C C1' 5GP . . . D 3 -15.022 -18.524 -14.321 1 30.38 ? C1' 5GP 302 A 1 HETATM 14 N N9 5GP . . . D 3 -15.554 -18.636 -12.953 1 27.43 ? N9 5GP 302 A 1 HETATM 15 C C8 5GP . . . D 3 -16.882 -18.567 -12.597 1 26.23 ? C8 5GP 302 A 1 HETATM 16 N N7 5GP . . . D 3 -17.027 -18.709 -11.268 1 23.94 ? N7 5GP 302 A 1 HETATM 17 C C5 5GP . . . D 3 -15.763 -18.938 -10.761 1 21.82 ? C5 5GP 302 A 1 HETATM 18 C C6 5GP . . . D 3 -15.231 -19.176 -9.428 1 21.67 ? C6 5GP 302 A 1 HETATM 19 O O6 5GP . . . D 3 -15.967 -19.286 -8.421 1 18.88 ? O6 5GP 302 A 1 HETATM 20 N N1 5GP . . . D 3 -13.893 -19.329 -9.354 1 19.94 ? N1 5GP 302 A 1 HETATM 21 C C2 5GP . . . D 3 -13.079 -19.254 -10.421 1 22.1 ? C2 5GP 302 A 1 HETATM 22 N N2 5GP . . . D 3 -11.746 -19.422 -10.205 1 20.36 ? N2 5GP 302 A 1 HETATM 23 N N3 5GP . . . D 3 -13.501 -19.041 -11.728 1 21.5 ? N3 5GP 302 A 1 HETATM 24 C C4 5GP . . . D 3 -14.806 -18.877 -11.881 1 24.62 ? C4 5GP 302 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 24 #