data_3PF9 # _model_server_result.job_id O3qnthgrnz-UV4mTzMhT7A _model_server_result.datetime_utc '2024-11-28 22:39:26' _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 3pf9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":252}' # _entry.id 3PF9 # _exptl.entry_id 3PF9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 3PF9 _cell.length_a 72.74 _cell.length_b 85.702 _cell.length_c 81.889 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3PF9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 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 _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' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E 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 GLY 87 A GLY 66 1_555 B NA NA . A NA 250 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc2 A O ASP 230 A ASP 209 1_555 E NA NA . A NA 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.789 ? metalc ? metalc3 A O TYR 233 A TYR 212 1_555 E NA NA . A NA 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? metalc ? metalc4 A OG SER 236 A SER 215 1_555 E NA NA . A NA 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.647 ? metalc ? metalc5 B NA NA . A NA 250 1_555 F O HOH . A HOH 293 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc6 C NA NA . A NA 251 1_555 F O HOH . A HOH 316 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.804 ? metalc ? metalc7 C NA NA . A NA 251 1_555 F O HOH . A HOH 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.698 ? metalc ? metalc8 D NA NA . A NA 252 1_555 F O HOH . A HOH 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.877 ? metalc ? metalc9 D NA NA . A NA 252 1_555 F O HOH . A HOH 457 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? metalc ? metalc10 E NA NA . A NA 253 1_555 F O HOH . A HOH 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.719 ? # _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 3PF9 _atom_sites.fract_transf_matrix[1][1] 0.013748 _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] 0.011668 _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] 0.012212 _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 NA A 1 250 1 NA NA . C 2 NA A 1 251 2 NA NA . D 2 NA A 1 252 3 NA NA . E 2 NA A 1 253 4 NA NA . F 3 HOH A 1 254 254 HOH HOH . F 3 HOH A 2 255 2 HOH HOH . F 3 HOH A 3 256 256 HOH HOH . F 3 HOH A 4 257 257 HOH HOH . F 3 HOH A 5 258 3 HOH HOH . F 3 HOH A 6 259 259 HOH HOH . F 3 HOH A 7 260 4 HOH HOH . F 3 HOH A 8 261 261 HOH HOH . F 3 HOH A 9 262 262 HOH HOH . F 3 HOH A 10 263 5 HOH HOH . F 3 HOH A 11 264 264 HOH HOH . F 3 HOH A 12 265 265 HOH HOH . F 3 HOH A 13 266 6 HOH HOH . F 3 HOH A 14 267 267 HOH HOH . F 3 HOH A 15 268 268 HOH HOH . F 3 HOH A 16 269 269 HOH HOH . F 3 HOH A 17 270 8 HOH HOH . F 3 HOH A 18 271 9 HOH HOH . F 3 HOH A 19 272 272 HOH HOH . F 3 HOH A 20 273 273 HOH HOH . F 3 HOH A 21 274 274 HOH HOH . F 3 HOH A 22 275 10 HOH HOH . F 3 HOH A 23 276 276 HOH HOH . F 3 HOH A 24 277 11 HOH HOH . F 3 HOH A 25 278 12 HOH HOH . F 3 HOH A 26 279 279 HOH HOH . F 3 HOH A 27 280 13 HOH HOH . F 3 HOH A 28 281 281 HOH HOH . F 3 HOH A 29 282 14 HOH HOH . F 3 HOH A 30 283 283 HOH HOH . F 3 HOH A 31 284 15 HOH HOH . F 3 HOH A 32 285 16 HOH HOH . F 3 HOH A 33 286 17 HOH HOH . F 3 HOH A 34 287 18 HOH HOH . F 3 HOH A 35 288 20 HOH HOH . F 3 HOH A 36 289 21 HOH HOH . F 3 HOH A 37 290 22 HOH HOH . F 3 HOH A 38 291 23 HOH HOH . F 3 HOH A 39 292 24 HOH HOH . F 3 HOH A 40 293 293 HOH HOH . F 3 HOH A 41 294 25 HOH HOH . F 3 HOH A 42 295 295 HOH HOH . F 3 HOH A 43 296 296 HOH HOH . F 3 HOH A 44 297 297 HOH HOH . F 3 HOH A 45 298 298 HOH HOH . F 3 HOH A 46 299 299 HOH HOH . F 3 HOH A 47 300 300 HOH HOH . F 3 HOH A 48 301 26 HOH HOH . F 3 HOH A 49 302 302 HOH HOH . F 3 HOH A 50 303 27 HOH HOH . F 3 HOH A 51 304 304 HOH HOH . F 3 HOH A 52 305 305 HOH HOH . F 3 HOH A 53 306 306 HOH HOH . F 3 HOH A 54 307 307 HOH HOH . F 3 HOH A 55 308 308 HOH HOH . F 3 HOH A 56 309 309 HOH HOH . F 3 HOH A 57 310 28 HOH HOH . F 3 HOH A 58 311 311 HOH HOH . F 3 HOH A 59 312 312 HOH HOH . F 3 HOH A 60 313 313 HOH HOH . F 3 HOH A 61 314 314 HOH HOH . F 3 HOH A 62 315 315 HOH HOH . F 3 HOH A 63 316 316 HOH HOH . F 3 HOH A 64 317 317 HOH HOH . F 3 HOH A 65 318 318 HOH HOH . F 3 HOH A 66 319 319 HOH HOH . F 3 HOH A 67 320 320 HOH HOH . F 3 HOH A 68 321 321 HOH HOH . F 3 HOH A 69 322 322 HOH HOH . F 3 HOH A 70 323 29 HOH HOH . F 3 HOH A 71 324 324 HOH HOH . F 3 HOH A 72 325 325 HOH HOH . F 3 HOH A 73 326 30 HOH HOH . F 3 HOH A 74 327 327 HOH HOH . F 3 HOH A 75 328 328 HOH HOH . F 3 HOH A 76 329 329 HOH HOH . F 3 HOH A 77 330 330 HOH HOH . F 3 HOH A 78 331 331 HOH HOH . F 3 HOH A 79 332 31 HOH HOH . F 3 HOH A 80 333 333 HOH HOH . F 3 HOH A 81 334 334 HOH HOH . F 3 HOH A 82 335 32 HOH HOH . F 3 HOH A 83 336 336 HOH HOH . F 3 HOH A 84 337 337 HOH HOH . F 3 HOH A 85 338 338 HOH HOH . F 3 HOH A 86 339 339 HOH HOH . F 3 HOH A 87 340 340 HOH HOH . F 3 HOH A 88 341 341 HOH HOH . F 3 HOH A 89 342 342 HOH HOH . F 3 HOH A 90 343 343 HOH HOH . F 3 HOH A 91 344 344 HOH HOH . F 3 HOH A 92 345 345 HOH HOH . F 3 HOH A 93 346 346 HOH HOH . F 3 HOH A 94 347 347 HOH HOH . F 3 HOH A 95 348 33 HOH HOH . F 3 HOH A 96 349 349 HOH HOH . F 3 HOH A 97 350 350 HOH HOH . F 3 HOH A 98 351 351 HOH HOH . F 3 HOH A 99 352 34 HOH HOH . F 3 HOH A 100 353 35 HOH HOH . F 3 HOH A 101 354 36 HOH HOH . F 3 HOH A 102 355 355 HOH HOH . F 3 HOH A 103 356 356 HOH HOH . F 3 HOH A 104 357 357 HOH HOH . F 3 HOH A 105 358 358 HOH HOH . F 3 HOH A 106 359 359 HOH HOH . F 3 HOH A 107 360 360 HOH HOH . F 3 HOH A 108 361 361 HOH HOH . F 3 HOH A 109 362 362 HOH HOH . F 3 HOH A 110 363 363 HOH HOH . F 3 HOH A 111 364 364 HOH HOH . F 3 HOH A 112 365 365 HOH HOH . F 3 HOH A 113 366 37 HOH HOH . F 3 HOH A 114 367 38 HOH HOH . F 3 HOH A 115 368 39 HOH HOH . F 3 HOH A 116 369 40 HOH HOH . F 3 HOH A 117 370 41 HOH HOH . F 3 HOH A 118 371 42 HOH HOH . F 3 HOH A 119 372 43 HOH HOH . F 3 HOH A 120 373 44 HOH HOH . F 3 HOH A 121 374 45 HOH HOH . F 3 HOH A 122 375 46 HOH HOH . F 3 HOH A 123 376 47 HOH HOH . F 3 HOH A 124 377 48 HOH HOH . F 3 HOH A 125 378 49 HOH HOH . F 3 HOH A 126 379 50 HOH HOH . F 3 HOH A 127 380 51 HOH HOH . F 3 HOH A 128 381 52 HOH HOH . F 3 HOH A 129 382 53 HOH HOH . F 3 HOH A 130 383 54 HOH HOH . F 3 HOH A 131 384 55 HOH HOH . F 3 HOH A 132 385 56 HOH HOH . F 3 HOH A 133 386 57 HOH HOH . F 3 HOH A 134 387 58 HOH HOH . F 3 HOH A 135 388 59 HOH HOH . F 3 HOH A 136 389 60 HOH HOH . F 3 HOH A 137 390 61 HOH HOH . F 3 HOH A 138 391 62 HOH HOH . F 3 HOH A 139 392 63 HOH HOH . F 3 HOH A 140 393 64 HOH HOH . F 3 HOH A 141 394 65 HOH HOH . F 3 HOH A 142 395 66 HOH HOH . F 3 HOH A 143 396 67 HOH HOH . F 3 HOH A 144 397 68 HOH HOH . F 3 HOH A 145 398 70 HOH HOH . F 3 HOH A 146 399 71 HOH HOH . F 3 HOH A 147 400 72 HOH HOH . F 3 HOH A 148 401 73 HOH HOH . F 3 HOH A 149 402 74 HOH HOH . F 3 HOH A 150 403 75 HOH HOH . F 3 HOH A 151 404 76 HOH HOH . F 3 HOH A 152 405 77 HOH HOH . F 3 HOH A 153 406 78 HOH HOH . F 3 HOH A 154 407 79 HOH HOH . F 3 HOH A 155 408 80 HOH HOH . F 3 HOH A 156 409 81 HOH HOH . F 3 HOH A 157 410 82 HOH HOH . F 3 HOH A 158 411 83 HOH HOH . F 3 HOH A 159 412 84 HOH HOH . F 3 HOH A 160 413 86 HOH HOH . F 3 HOH A 161 414 87 HOH HOH . F 3 HOH A 162 415 88 HOH HOH . F 3 HOH A 163 416 89 HOH HOH . F 3 HOH A 164 417 90 HOH HOH . F 3 HOH A 165 418 91 HOH HOH . F 3 HOH A 166 419 92 HOH HOH . F 3 HOH A 167 420 93 HOH HOH . F 3 HOH A 168 421 94 HOH HOH . F 3 HOH A 169 422 95 HOH HOH . F 3 HOH A 170 423 96 HOH HOH . F 3 HOH A 171 424 97 HOH HOH . F 3 HOH A 172 425 98 HOH HOH . F 3 HOH A 173 426 99 HOH HOH . F 3 HOH A 174 427 100 HOH HOH . F 3 HOH A 175 428 101 HOH HOH . F 3 HOH A 176 429 102 HOH HOH . F 3 HOH A 177 430 103 HOH HOH . F 3 HOH A 178 431 104 HOH HOH . F 3 HOH A 179 432 105 HOH HOH . F 3 HOH A 180 433 106 HOH HOH . F 3 HOH A 181 434 107 HOH HOH . F 3 HOH A 182 435 109 HOH HOH . F 3 HOH A 183 436 111 HOH HOH . F 3 HOH A 184 437 112 HOH HOH . F 3 HOH A 185 438 113 HOH HOH . F 3 HOH A 186 439 115 HOH HOH . F 3 HOH A 187 440 116 HOH HOH . F 3 HOH A 188 441 118 HOH HOH . F 3 HOH A 189 442 119 HOH HOH . F 3 HOH A 190 443 121 HOH HOH . F 3 HOH A 191 444 122 HOH HOH . F 3 HOH A 192 445 123 HOH HOH . F 3 HOH A 193 446 124 HOH HOH . F 3 HOH A 194 447 127 HOH HOH . F 3 HOH A 195 448 128 HOH HOH . F 3 HOH A 196 449 129 HOH HOH . F 3 HOH A 197 450 130 HOH HOH . F 3 HOH A 198 451 131 HOH HOH . F 3 HOH A 199 452 133 HOH HOH . F 3 HOH A 200 453 136 HOH HOH . F 3 HOH A 201 454 137 HOH HOH . F 3 HOH A 202 455 138 HOH HOH . F 3 HOH A 203 456 139 HOH HOH . F 3 HOH A 204 457 140 HOH HOH . F 3 HOH A 205 458 141 HOH HOH . F 3 HOH A 206 459 142 HOH HOH . F 3 HOH A 207 460 143 HOH HOH . F 3 HOH A 208 461 144 HOH HOH . F 3 HOH A 209 462 145 HOH HOH . F 3 HOH A 210 463 146 HOH HOH . F 3 HOH A 211 464 148 HOH HOH . F 3 HOH A 212 465 149 HOH HOH . F 3 HOH A 213 466 150 HOH HOH . F 3 HOH A 214 467 151 HOH HOH . F 3 HOH A 215 468 152 HOH HOH . F 3 HOH A 216 469 154 HOH HOH . F 3 HOH A 217 470 155 HOH HOH . F 3 HOH A 218 471 156 HOH HOH . F 3 HOH A 219 472 157 HOH HOH . F 3 HOH A 220 473 158 HOH HOH . F 3 HOH A 221 474 159 HOH HOH . F 3 HOH A 222 475 160 HOH HOH . F 3 HOH A 223 476 161 HOH HOH . F 3 HOH A 224 477 162 HOH HOH . F 3 HOH A 225 478 163 HOH HOH . F 3 HOH A 226 479 164 HOH HOH . F 3 HOH A 227 480 165 HOH HOH . F 3 HOH A 228 481 166 HOH HOH . F 3 HOH A 229 482 167 HOH HOH . F 3 HOH A 230 483 168 HOH HOH . F 3 HOH A 231 484 169 HOH HOH . F 3 HOH A 232 485 170 HOH HOH . F 3 HOH A 233 486 171 HOH HOH . F 3 HOH A 234 487 172 HOH HOH . F 3 HOH A 235 488 174 HOH HOH . F 3 HOH A 236 489 175 HOH HOH . F 3 HOH A 237 490 176 HOH HOH . F 3 HOH A 238 491 177 HOH HOH . F 3 HOH A 239 492 178 HOH HOH . F 3 HOH A 240 493 179 HOH HOH . F 3 HOH A 241 494 180 HOH HOH . F 3 HOH A 242 495 181 HOH HOH . F 3 HOH A 243 496 183 HOH HOH . F 3 HOH A 244 497 184 HOH HOH . F 3 HOH A 245 498 185 HOH HOH . F 3 HOH A 246 499 186 HOH HOH . F 3 HOH A 247 500 187 HOH HOH . F 3 HOH A 248 501 189 HOH HOH . F 3 HOH A 249 502 191 HOH HOH . F 3 HOH A 250 503 192 HOH HOH . F 3 HOH A 251 504 193 HOH HOH . F 3 HOH A 252 505 194 HOH HOH . F 3 HOH A 253 506 195 HOH HOH . F 3 HOH A 254 507 198 HOH HOH . F 3 HOH A 255 508 200 HOH HOH . F 3 HOH A 256 509 201 HOH HOH . F 3 HOH A 257 510 202 HOH HOH . F 3 HOH A 258 511 204 HOH HOH . F 3 HOH A 259 512 205 HOH HOH . F 3 HOH A 260 513 206 HOH HOH . F 3 HOH A 261 514 207 HOH HOH . F 3 HOH A 262 515 208 HOH HOH . F 3 HOH A 263 516 211 HOH HOH . F 3 HOH A 264 517 216 HOH HOH . F 3 HOH A 265 518 219 HOH HOH . F 3 HOH A 266 519 220 HOH HOH . F 3 HOH A 267 520 224 HOH HOH . F 3 HOH A 268 521 227 HOH HOH . F 3 HOH A 269 522 228 HOH HOH . F 3 HOH A 270 523 235 HOH HOH . F 3 HOH A 271 524 238 HOH HOH . F 3 HOH A 272 525 239 HOH HOH . F 3 HOH A 273 526 241 HOH HOH . F 3 HOH A 274 527 245 HOH HOH . F 3 HOH A 275 528 250 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 D _atom_site.label_entity_id 2 _atom_site.Cartn_x -5.673 _atom_site.Cartn_y -20.608 _atom_site.Cartn_z -5.383 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 55.89 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 252 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #