data_5TDR # _model_server_result.job_id ZKLUIDVjOcE0R5FeNffzDw _model_server_result.datetime_utc '2024-11-04 20:34:32' _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 5tdr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":104}' # _entry.id 5TDR # _exptl.entry_id 5TDR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _entity.pdbx_number_of_molecules 2 _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 5TDR _cell.length_a 25.931 _cell.length_b 43.72 _cell.length_c 84.698 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TDR _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 2 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 4 E N N ? 4 F N 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 metalc ? metalc1 A O CYS 6 A CYS 5 1_555 E NA NA . A NA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.837 ? metalc ? metalc2 A SG CYS 6 A CYS 5 1_555 D ZN ZN . A ZN 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc3 A SG CYS 8 A CYS 7 1_555 D ZN ZN . A ZN 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc4 A OD1 ASP 9 A ASP 8 1_555 E NA NA . A NA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.698 ? metalc ? metalc5 A OD2 ASP 14 A ASP 13 1_555 F NA NA . A NA 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.645 ? metalc ? metalc6 A O PHE 16 A PHE 15 1_555 F NA NA . A NA 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.767 ? metalc ? metalc7 A SG CYS 20 A CYS 19 1_555 C ZN ZN . A ZN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc8 A SG CYS 23 A CYS 22 1_555 C ZN ZN . A ZN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc9 A ND1 HIS 28 A HIS 27 1_555 D ZN ZN . A ZN 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc10 A SG CYS 31 A CYS 30 1_555 D ZN ZN . A ZN 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc11 A SG CYS 46 A CYS 45 1_555 C ZN ZN . A ZN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? metalc ? metalc12 A SG CYS 49 A CYS 48 1_555 C ZN ZN . A ZN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? covale ? covale1 B C THR 3 B THR 3 1_555 B N MLY 4 B MLY 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 B C MLY 4 B MLY 4 1_555 B N GLN 5 B GLN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? metalc ? metalc13 E NA NA . A NA 103 1_555 G O HOH . A HOH 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.803 ? metalc ? metalc14 F NA NA . A NA 104 1_555 G O HOH . A HOH 316 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.72 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5TDR _atom_sites.fract_transf_matrix[1][1] 0.038564 _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] 0.022873 _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] 0.011807 _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 3 ZN A 1 101 1 ZN ZN . D 3 ZN A 1 102 2 ZN ZN . E 4 NA A 1 103 1 NA NA . F 4 NA A 1 104 2 NA NA . G 5 HOH A 1 201 182 HOH HOH . G 5 HOH A 2 202 91 HOH HOH . G 5 HOH A 3 203 133 HOH HOH . G 5 HOH A 4 204 171 HOH HOH . G 5 HOH A 5 205 64 HOH HOH . G 5 HOH A 6 206 101 HOH HOH . G 5 HOH A 7 207 129 HOH HOH . G 5 HOH A 8 208 144 HOH HOH . G 5 HOH A 9 209 83 HOH HOH . G 5 HOH A 10 210 2 HOH HOH . G 5 HOH A 11 211 25 HOH HOH . G 5 HOH A 12 212 173 HOH HOH . G 5 HOH A 13 213 5 HOH HOH . G 5 HOH A 14 214 110 HOH HOH . G 5 HOH A 15 215 7 HOH HOH . G 5 HOH A 16 216 124 HOH HOH . G 5 HOH A 17 217 30 HOH HOH . G 5 HOH A 18 218 17 HOH HOH . G 5 HOH A 19 219 79 HOH HOH . G 5 HOH A 20 220 12 HOH HOH . G 5 HOH A 21 221 33 HOH HOH . G 5 HOH A 22 222 152 HOH HOH . G 5 HOH A 23 223 154 HOH HOH . G 5 HOH A 24 224 24 HOH HOH . G 5 HOH A 25 225 142 HOH HOH . G 5 HOH A 26 226 11 HOH HOH . G 5 HOH A 27 227 27 HOH HOH . G 5 HOH A 28 228 45 HOH HOH . G 5 HOH A 29 229 67 HOH HOH . G 5 HOH A 30 230 175 HOH HOH . G 5 HOH A 31 231 21 HOH HOH . G 5 HOH A 32 232 9 HOH HOH . G 5 HOH A 33 233 128 HOH HOH . G 5 HOH A 34 234 95 HOH HOH . G 5 HOH A 35 235 37 HOH HOH . G 5 HOH A 36 236 121 HOH HOH . G 5 HOH A 37 237 23 HOH HOH . G 5 HOH A 38 238 84 HOH HOH . G 5 HOH A 39 239 117 HOH HOH . G 5 HOH A 40 240 6 HOH HOH . G 5 HOH A 41 241 22 HOH HOH . G 5 HOH A 42 242 3 HOH HOH . G 5 HOH A 43 243 136 HOH HOH . G 5 HOH A 44 244 188 HOH HOH . G 5 HOH A 45 245 61 HOH HOH . G 5 HOH A 46 246 18 HOH HOH . G 5 HOH A 47 247 76 HOH HOH . G 5 HOH A 48 248 81 HOH HOH . G 5 HOH A 49 249 147 HOH HOH . G 5 HOH A 50 250 1 HOH HOH . G 5 HOH A 51 251 35 HOH HOH . G 5 HOH A 52 252 14 HOH HOH . G 5 HOH A 53 253 59 HOH HOH . G 5 HOH A 54 254 72 HOH HOH . G 5 HOH A 55 255 40 HOH HOH . G 5 HOH A 56 256 54 HOH HOH . G 5 HOH A 57 257 189 HOH HOH . G 5 HOH A 58 258 122 HOH HOH . G 5 HOH A 59 259 62 HOH HOH . G 5 HOH A 60 260 148 HOH HOH . G 5 HOH A 61 261 113 HOH HOH . G 5 HOH A 62 262 71 HOH HOH . G 5 HOH A 63 263 36 HOH HOH . G 5 HOH A 64 264 60 HOH HOH . G 5 HOH A 65 265 93 HOH HOH . G 5 HOH A 66 266 57 HOH HOH . G 5 HOH A 67 267 127 HOH HOH . G 5 HOH A 68 268 19 HOH HOH . G 5 HOH A 69 269 170 HOH HOH . G 5 HOH A 70 270 49 HOH HOH . G 5 HOH A 71 271 44 HOH HOH . G 5 HOH A 72 272 68 HOH HOH . G 5 HOH A 73 273 166 HOH HOH . G 5 HOH A 74 274 141 HOH HOH . G 5 HOH A 75 275 80 HOH HOH . G 5 HOH A 76 276 143 HOH HOH . G 5 HOH A 77 277 92 HOH HOH . G 5 HOH A 78 278 164 HOH HOH . G 5 HOH A 79 279 200 HOH HOH . G 5 HOH A 80 280 123 HOH HOH . G 5 HOH A 81 281 26 HOH HOH . G 5 HOH A 82 282 103 HOH HOH . G 5 HOH A 83 283 177 HOH HOH . G 5 HOH A 84 284 191 HOH HOH . G 5 HOH A 85 285 115 HOH HOH . G 5 HOH A 86 286 29 HOH HOH . G 5 HOH A 87 287 87 HOH HOH . G 5 HOH A 88 288 58 HOH HOH . G 5 HOH A 89 289 20 HOH HOH . G 5 HOH A 90 290 15 HOH HOH . G 5 HOH A 91 291 116 HOH HOH . G 5 HOH A 92 292 56 HOH HOH . G 5 HOH A 93 293 153 HOH HOH . G 5 HOH A 94 294 172 HOH HOH . G 5 HOH A 95 295 109 HOH HOH . G 5 HOH A 96 296 195 HOH HOH . G 5 HOH A 97 297 39 HOH HOH . G 5 HOH A 98 298 100 HOH HOH . G 5 HOH A 99 299 77 HOH HOH . G 5 HOH A 100 300 34 HOH HOH . G 5 HOH A 101 301 134 HOH HOH . G 5 HOH A 102 302 190 HOH HOH . G 5 HOH A 103 303 105 HOH HOH . G 5 HOH A 104 304 199 HOH HOH . G 5 HOH A 105 305 63 HOH HOH . G 5 HOH A 106 306 159 HOH HOH . G 5 HOH A 107 307 198 HOH HOH . G 5 HOH A 108 308 158 HOH HOH . G 5 HOH A 109 309 178 HOH HOH . G 5 HOH A 110 310 86 HOH HOH . G 5 HOH A 111 311 149 HOH HOH . G 5 HOH A 112 312 53 HOH HOH . G 5 HOH A 113 313 181 HOH HOH . G 5 HOH A 114 314 94 HOH HOH . G 5 HOH A 115 315 65 HOH HOH . G 5 HOH A 116 316 55 HOH HOH . G 5 HOH A 117 317 78 HOH HOH . G 5 HOH A 118 318 32 HOH HOH . G 5 HOH A 119 319 176 HOH HOH . G 5 HOH A 120 320 46 HOH HOH . G 5 HOH A 121 321 107 HOH HOH . G 5 HOH A 122 322 89 HOH HOH . G 5 HOH A 123 323 38 HOH HOH . G 5 HOH A 124 324 28 HOH HOH . G 5 HOH A 125 325 42 HOH HOH . G 5 HOH A 126 326 163 HOH HOH . G 5 HOH A 127 327 184 HOH HOH . G 5 HOH A 128 328 73 HOH HOH . G 5 HOH A 129 329 160 HOH HOH . G 5 HOH A 130 330 140 HOH HOH . G 5 HOH A 131 331 132 HOH HOH . G 5 HOH A 132 332 43 HOH HOH . G 5 HOH A 133 333 126 HOH HOH . G 5 HOH A 134 334 66 HOH HOH . G 5 HOH A 135 335 75 HOH HOH . G 5 HOH A 136 336 193 HOH HOH . G 5 HOH A 137 337 196 HOH HOH . G 5 HOH A 138 338 74 HOH HOH . G 5 HOH A 139 339 85 HOH HOH . G 5 HOH A 140 340 179 HOH HOH . G 5 HOH A 141 341 137 HOH HOH . G 5 HOH A 142 342 52 HOH HOH . G 5 HOH A 143 343 146 HOH HOH . G 5 HOH A 144 344 41 HOH HOH . G 5 HOH A 145 345 16 HOH HOH . G 5 HOH A 146 346 114 HOH HOH . G 5 HOH A 147 347 70 HOH HOH . G 5 HOH A 148 348 151 HOH HOH . G 5 HOH A 149 349 31 HOH HOH . G 5 HOH A 150 350 185 HOH HOH . G 5 HOH A 151 351 186 HOH HOH . G 5 HOH A 152 352 51 HOH HOH . G 5 HOH A 153 353 98 HOH HOH . G 5 HOH A 154 354 10 HOH HOH . G 5 HOH A 155 355 48 HOH HOH . G 5 HOH A 156 356 139 HOH HOH . G 5 HOH A 157 357 102 HOH HOH . G 5 HOH A 158 358 194 HOH HOH . G 5 HOH A 159 359 131 HOH HOH . G 5 HOH A 160 360 201 HOH HOH . G 5 HOH A 161 361 69 HOH HOH . G 5 HOH A 162 362 162 HOH HOH . G 5 HOH A 163 363 120 HOH HOH . G 5 HOH A 164 364 96 HOH HOH . G 5 HOH A 165 365 108 HOH HOH . G 5 HOH A 166 366 150 HOH HOH . G 5 HOH A 167 367 88 HOH HOH . G 5 HOH A 168 368 97 HOH HOH . G 5 HOH A 169 369 13 HOH HOH . G 5 HOH A 170 370 119 HOH HOH . G 5 HOH A 171 371 156 HOH HOH . G 5 HOH A 172 372 167 HOH HOH . G 5 HOH A 173 373 180 HOH HOH . G 5 HOH A 174 374 192 HOH HOH . G 5 HOH A 175 375 183 HOH HOH . G 5 HOH A 176 376 145 HOH HOH . G 5 HOH A 177 377 169 HOH HOH . G 5 HOH A 178 378 165 HOH HOH . G 5 HOH A 179 379 168 HOH HOH . G 5 HOH A 180 380 135 HOH HOH . G 5 HOH A 181 381 90 HOH HOH . H 5 HOH B 1 101 99 HOH HOH . H 5 HOH B 2 102 104 HOH HOH . H 5 HOH B 3 103 82 HOH HOH . H 5 HOH B 4 104 50 HOH HOH . H 5 HOH B 5 105 112 HOH HOH . H 5 HOH B 6 106 4 HOH HOH . H 5 HOH B 7 107 157 HOH HOH . H 5 HOH B 8 108 8 HOH HOH . H 5 HOH B 9 109 155 HOH HOH . H 5 HOH B 10 110 111 HOH HOH . H 5 HOH B 11 111 118 HOH HOH . H 5 HOH B 12 112 197 HOH HOH . H 5 HOH B 13 113 106 HOH HOH . H 5 HOH B 14 114 125 HOH HOH . H 5 HOH B 15 115 161 HOH HOH . H 5 HOH B 16 116 138 HOH HOH . H 5 HOH B 17 117 187 HOH HOH . H 5 HOH B 18 118 174 HOH HOH . H 5 HOH B 19 119 47 HOH HOH . H 5 HOH B 20 120 130 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id F _atom_site.label_entity_id 4 _atom_site.Cartn_x 5.562 _atom_site.Cartn_y 4.097 _atom_site.Cartn_z 10.678 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 14.47 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 104 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 386 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #