data_5LDK # _model_server_result.job_id nwGEIBYpBhT7Zu3r0nmgAw _model_server_result.datetime_utc '2024-10-14 16:21:03' _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 5ldk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 5LDK # _exptl.entry_id 5LDK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 128.54 _cell.angle_gamma 90 _cell.entry_id 5LDK _cell.length_a 101.95 _cell.length_b 73.33 _cell.length_c 77.49 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5LDK _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D 1 1 B,C,E 2 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 C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 5LDK _atom_sites.fract_transf_matrix[1][1] 0.009809 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007814 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013637 _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] 0.016499 _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 ATP B 1 201 1 ATP ATP . D 3 HOH A 1 201 177 HOH HOH . D 3 HOH A 2 202 77 HOH HOH . D 3 HOH A 3 203 194 HOH HOH . D 3 HOH A 4 204 174 HOH HOH . D 3 HOH A 5 205 104 HOH HOH . D 3 HOH A 6 206 188 HOH HOH . D 3 HOH A 7 207 157 HOH HOH . D 3 HOH A 8 208 171 HOH HOH . D 3 HOH A 9 209 190 HOH HOH . D 3 HOH A 10 210 149 HOH HOH . D 3 HOH A 11 211 81 HOH HOH . D 3 HOH A 12 212 197 HOH HOH . D 3 HOH A 13 213 27 HOH HOH . D 3 HOH A 14 214 2 HOH HOH . D 3 HOH A 15 215 172 HOH HOH . D 3 HOH A 16 216 109 HOH HOH . D 3 HOH A 17 217 55 HOH HOH . D 3 HOH A 18 218 37 HOH HOH . D 3 HOH A 19 219 4 HOH HOH . D 3 HOH A 20 220 5 HOH HOH . D 3 HOH A 21 221 30 HOH HOH . D 3 HOH A 22 222 92 HOH HOH . D 3 HOH A 23 223 8 HOH HOH . D 3 HOH A 24 224 173 HOH HOH . D 3 HOH A 25 225 46 HOH HOH . D 3 HOH A 26 226 66 HOH HOH . D 3 HOH A 27 227 112 HOH HOH . D 3 HOH A 28 228 67 HOH HOH . D 3 HOH A 29 229 76 HOH HOH . D 3 HOH A 30 230 19 HOH HOH . D 3 HOH A 31 231 41 HOH HOH . D 3 HOH A 32 232 133 HOH HOH . D 3 HOH A 33 233 31 HOH HOH . D 3 HOH A 34 234 9 HOH HOH . D 3 HOH A 35 235 65 HOH HOH . D 3 HOH A 36 236 126 HOH HOH . D 3 HOH A 37 237 158 HOH HOH . D 3 HOH A 38 238 114 HOH HOH . D 3 HOH A 39 239 60 HOH HOH . D 3 HOH A 40 240 11 HOH HOH . D 3 HOH A 41 241 17 HOH HOH . D 3 HOH A 42 242 26 HOH HOH . D 3 HOH A 43 243 14 HOH HOH . D 3 HOH A 44 244 13 HOH HOH . D 3 HOH A 45 245 180 HOH HOH . D 3 HOH A 46 246 33 HOH HOH . D 3 HOH A 47 247 185 HOH HOH . D 3 HOH A 48 248 153 HOH HOH . D 3 HOH A 49 249 196 HOH HOH . D 3 HOH A 50 250 69 HOH HOH . D 3 HOH A 51 251 110 HOH HOH . D 3 HOH A 52 252 47 HOH HOH . D 3 HOH A 53 253 12 HOH HOH . D 3 HOH A 54 254 122 HOH HOH . D 3 HOH A 55 255 40 HOH HOH . D 3 HOH A 56 256 29 HOH HOH . D 3 HOH A 57 257 35 HOH HOH . D 3 HOH A 58 258 38 HOH HOH . D 3 HOH A 59 259 131 HOH HOH . D 3 HOH A 60 260 94 HOH HOH . D 3 HOH A 61 261 42 HOH HOH . D 3 HOH A 62 262 43 HOH HOH . D 3 HOH A 63 263 136 HOH HOH . D 3 HOH A 64 264 52 HOH HOH . D 3 HOH A 65 265 98 HOH HOH . D 3 HOH A 66 266 24 HOH HOH . D 3 HOH A 67 267 108 HOH HOH . D 3 HOH A 68 268 82 HOH HOH . D 3 HOH A 69 269 139 HOH HOH . D 3 HOH A 70 270 121 HOH HOH . D 3 HOH A 71 271 178 HOH HOH . D 3 HOH A 72 272 21 HOH HOH . D 3 HOH A 73 273 119 HOH HOH . D 3 HOH A 74 274 105 HOH HOH . D 3 HOH A 75 275 80 HOH HOH . D 3 HOH A 76 276 140 HOH HOH . D 3 HOH A 77 277 167 HOH HOH . D 3 HOH A 78 278 159 HOH HOH . D 3 HOH A 79 279 155 HOH HOH . D 3 HOH A 80 280 142 HOH HOH . D 3 HOH A 81 281 186 HOH HOH . D 3 HOH A 82 282 181 HOH HOH . D 3 HOH A 83 283 148 HOH HOH . D 3 HOH A 84 284 137 HOH HOH . D 3 HOH A 85 285 179 HOH HOH . D 3 HOH A 86 286 20 HOH HOH . D 3 HOH A 87 287 156 HOH HOH . D 3 HOH A 88 288 162 HOH HOH . D 3 HOH A 89 289 79 HOH HOH . D 3 HOH A 90 290 146 HOH HOH . D 3 HOH A 91 291 59 HOH HOH . D 3 HOH A 92 292 154 HOH HOH . D 3 HOH A 93 293 151 HOH HOH . D 3 HOH A 94 294 129 HOH HOH . D 3 HOH A 95 295 169 HOH HOH . D 3 HOH A 96 296 189 HOH HOH . D 3 HOH A 97 297 123 HOH HOH . D 3 HOH A 98 298 135 HOH HOH . D 3 HOH A 99 299 150 HOH HOH . D 3 HOH A 100 300 134 HOH HOH . D 3 HOH A 101 301 128 HOH HOH . D 3 HOH A 102 302 83 HOH HOH . D 3 HOH A 103 303 166 HOH HOH . E 3 HOH B 1 301 89 HOH HOH . E 3 HOH B 2 302 195 HOH HOH . E 3 HOH B 3 303 91 HOH HOH . E 3 HOH B 4 304 164 HOH HOH . E 3 HOH B 5 305 120 HOH HOH . E 3 HOH B 6 306 34 HOH HOH . E 3 HOH B 7 307 70 HOH HOH . E 3 HOH B 8 308 118 HOH HOH . E 3 HOH B 9 309 93 HOH HOH . E 3 HOH B 10 310 165 HOH HOH . E 3 HOH B 11 311 115 HOH HOH . E 3 HOH B 12 312 6 HOH HOH . E 3 HOH B 13 313 1 HOH HOH . E 3 HOH B 14 314 44 HOH HOH . E 3 HOH B 15 315 100 HOH HOH . E 3 HOH B 16 316 49 HOH HOH . E 3 HOH B 17 317 163 HOH HOH . E 3 HOH B 18 318 63 HOH HOH . E 3 HOH B 19 319 68 HOH HOH . E 3 HOH B 20 320 113 HOH HOH . E 3 HOH B 21 321 176 HOH HOH . E 3 HOH B 22 322 124 HOH HOH . E 3 HOH B 23 323 184 HOH HOH . E 3 HOH B 24 324 28 HOH HOH . E 3 HOH B 25 325 25 HOH HOH . E 3 HOH B 26 326 75 HOH HOH . E 3 HOH B 27 327 51 HOH HOH . E 3 HOH B 28 328 74 HOH HOH . E 3 HOH B 29 329 48 HOH HOH . E 3 HOH B 30 330 132 HOH HOH . E 3 HOH B 31 331 175 HOH HOH . E 3 HOH B 32 332 192 HOH HOH . E 3 HOH B 33 333 16 HOH HOH . E 3 HOH B 34 334 106 HOH HOH . E 3 HOH B 35 335 97 HOH HOH . E 3 HOH B 36 336 10 HOH HOH . E 3 HOH B 37 337 130 HOH HOH . E 3 HOH B 38 338 32 HOH HOH . E 3 HOH B 39 339 7 HOH HOH . E 3 HOH B 40 340 57 HOH HOH . E 3 HOH B 41 341 138 HOH HOH . E 3 HOH B 42 342 62 HOH HOH . E 3 HOH B 43 343 22 HOH HOH . E 3 HOH B 44 344 54 HOH HOH . E 3 HOH B 45 345 87 HOH HOH . E 3 HOH B 46 346 18 HOH HOH . E 3 HOH B 47 347 103 HOH HOH . E 3 HOH B 48 348 15 HOH HOH . E 3 HOH B 49 349 187 HOH HOH . E 3 HOH B 50 350 170 HOH HOH . E 3 HOH B 51 351 160 HOH HOH . E 3 HOH B 52 352 88 HOH HOH . E 3 HOH B 53 353 64 HOH HOH . E 3 HOH B 54 354 23 HOH HOH . E 3 HOH B 55 355 56 HOH HOH . E 3 HOH B 56 356 125 HOH HOH . E 3 HOH B 57 357 182 HOH HOH . E 3 HOH B 58 358 53 HOH HOH . E 3 HOH B 59 359 144 HOH HOH . E 3 HOH B 60 360 78 HOH HOH . E 3 HOH B 61 361 183 HOH HOH . E 3 HOH B 62 362 39 HOH HOH . E 3 HOH B 63 363 96 HOH HOH . E 3 HOH B 64 364 111 HOH HOH . E 3 HOH B 65 365 161 HOH HOH . E 3 HOH B 66 366 99 HOH HOH . E 3 HOH B 67 367 3 HOH HOH . E 3 HOH B 68 368 71 HOH HOH . E 3 HOH B 69 369 61 HOH HOH . E 3 HOH B 70 370 72 HOH HOH . E 3 HOH B 71 371 193 HOH HOH . E 3 HOH B 72 372 141 HOH HOH . E 3 HOH B 73 373 84 HOH HOH . E 3 HOH B 74 374 95 HOH HOH . E 3 HOH B 75 375 143 HOH HOH . E 3 HOH B 76 376 145 HOH HOH . E 3 HOH B 77 377 168 HOH HOH . E 3 HOH B 78 378 73 HOH HOH . E 3 HOH B 79 379 85 HOH HOH . E 3 HOH B 80 380 191 HOH HOH . E 3 HOH B 81 381 50 HOH HOH . E 3 HOH B 82 382 86 HOH HOH . E 3 HOH B 83 383 127 HOH HOH . E 3 HOH B 84 384 45 HOH HOH . E 3 HOH B 85 385 101 HOH HOH . E 3 HOH B 86 386 147 HOH HOH . E 3 HOH B 87 387 36 HOH HOH . E 3 HOH B 88 388 116 HOH HOH . E 3 HOH B 89 389 90 HOH HOH . E 3 HOH B 90 390 58 HOH HOH . E 3 HOH B 91 391 107 HOH HOH . E 3 HOH B 92 392 152 HOH HOH . E 3 HOH B 93 393 117 HOH HOH . E 3 HOH B 94 394 102 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 PG ATP . . . C 2 105.212 32.075 55.633 1 73.5 ? PG ATP 201 B 1 HETATM 2 O O1G ATP . . . C 2 103.872 31.404 55.412 1 58.51 ? O1G ATP 201 B 1 HETATM 3 O O2G ATP . . . C 2 106.152 31.324 56.554 1 63.91 ? O2G ATP 201 B 1 HETATM 4 O O3G ATP . . . C 2 105.099 33.556 55.935 1 58.7 ? O3G ATP 201 B 1 HETATM 5 P PB ATP . . . C 2 105.665 31.022 52.968 1 70.36 ? PB ATP 201 B 1 HETATM 6 O O1B ATP . . . C 2 107.031 30.561 52.508 1 60.31 ? O1B ATP 201 B 1 HETATM 7 O O2B ATP . . . C 2 104.607 29.986 53.31 1 61.36 ? O2B ATP 201 B 1 HETATM 8 O O3B ATP . . . C 2 105.939 32.056 54.186 1 62.63 ? O3B ATP 201 B 1 HETATM 9 P PA ATP . . . C 2 104.099 33.254 51.979 1 49.65 ? PA ATP 201 B 1 HETATM 10 O O1A ATP . . . C 2 103.065 33.2 50.894 1 47.2 ? O1A ATP 201 B 1 HETATM 11 O O2A ATP . . . C 2 103.615 33.39 53.411 1 57.15 ? O2A ATP 201 B 1 HETATM 12 O O3A ATP . . . C 2 105.13 32.011 51.798 1 52.44 ? O3A ATP 201 B 1 HETATM 13 O O5' ATP . . . C 2 105.058 34.512 51.698 1 48.36 ? O5' ATP 201 B 1 HETATM 14 C C5' ATP . . . C 2 105.597 34.765 50.411 1 42.81 ? C5' ATP 201 B 1 HETATM 15 C C4' ATP . . . C 2 106.769 35.721 50.594 1 40.5 ? C4' ATP 201 B 1 HETATM 16 O O4' ATP . . . C 2 106.311 36.906 51.255 1 41.57 ? O4' ATP 201 B 1 HETATM 17 C C3' ATP . . . C 2 107.855 35.123 51.474 1 45.12 ? C3' ATP 201 B 1 HETATM 18 O O3' ATP . . . C 2 109.101 35.596 50.958 1 26.2 ? O3' ATP 201 B 1 HETATM 19 C C2' ATP . . . C 2 107.611 35.729 52.851 1 49.04 ? C2' ATP 201 B 1 HETATM 20 O O2' ATP . . . C 2 108.8 35.826 53.656 1 45.5 ? O2' ATP 201 B 1 HETATM 21 C C1' ATP . . . C 2 107.02 37.088 52.491 1 45.06 ? C1' ATP 201 B 1 HETATM 22 N N9 ATP . . . C 2 106.049 37.605 53.484 1 50.67 ? N9 ATP 201 B 1 HETATM 23 C C8 ATP . . . C 2 104.983 36.953 54.011 1 48.55 ? C8 ATP 201 B 1 HETATM 24 N N7 ATP . . . C 2 104.304 37.756 54.878 1 46.37 ? N7 ATP 201 B 1 HETATM 25 C C5 ATP . . . C 2 104.943 38.947 54.911 1 48.76 ? C5 ATP 201 B 1 HETATM 26 C C6 ATP . . . C 2 104.76 40.248 55.609 1 51.19 ? C6 ATP 201 B 1 HETATM 27 N N6 ATP . . . C 2 103.735 40.443 56.479 1 54.77 ? N6 ATP 201 B 1 HETATM 28 N N1 ATP . . . C 2 105.663 41.229 55.349 1 51.33 ? N1 ATP 201 B 1 HETATM 29 C C2 ATP . . . C 2 106.692 41.052 54.487 1 51.18 ? C2 ATP 201 B 1 HETATM 30 N N3 ATP . . . C 2 106.917 39.906 53.814 1 44.57 ? N3 ATP 201 B 1 HETATM 31 C C4 ATP . . . C 2 106.09 38.841 53.985 1 47.5 ? C4 ATP 201 B 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #