data_3VGL # _model_server_result.job_id 93S9Gfabs-WcsVk_D4QxXw _model_server_result.datetime_utc '2024-12-26 11:49:47' _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 3vgl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":323}' # _entry.id 3VGL # _exptl.entry_id 3VGL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 3VGL _cell.length_a 69.58 _cell.length_b 87.73 _cell.length_c 125.39 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VGL _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_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 1,2,3,4 # 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' 2_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 87.73 0 3 'crystal symmetry operation' 3_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 4 'crystal symmetry operation' 4_565 x,-y+1,-z 1 0 0 0 -1 0 0 0 -1 0 87.73 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 OD1 ASN 104 A ASN 104 1_555 C NA NA . A NA 323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc2 A OD1 ASN 107 A ASN 107 1_555 C NA NA . A NA 323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? metalc ? metalc3 A O GLY 136 A GLY 136 1_555 C NA NA . A NA 323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc4 A O ALA 153 A ALA 153 1_555 C NA NA . A NA 323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.128 ? metalc ? metalc5 A ND1 HIS 157 A HIS 157 1_555 B ZN ZN . A ZN 322 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? metalc ? metalc6 A SG CYS 167 A CYS 167 1_555 B ZN ZN . A ZN 322 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc7 A SG CYS 169 A CYS 169 1_555 B ZN ZN . A ZN 322 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc8 A SG CYS 174 A CYS 174 1_555 B ZN ZN . A ZN 322 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc9 C NA NA . A NA 323 1_555 F O HOH . A HOH 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? metalc ? metalc10 C NA NA . A NA 323 1_555 F O HOH . A HOH 342 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? # _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 3VGL _atom_sites.fract_transf_matrix[1][1] 0.014372 _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] 0.011399 _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] 0.007975 _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 ZN A 1 322 314 ZN ZN . C 3 NA A 1 323 315 NA NA . D 4 BGC A 1 324 316 BGC BGC . E 5 ANP A 1 325 317 ANP ANP . F 6 HOH A 1 326 1 HOH HOH . F 6 HOH A 2 327 2 HOH HOH . F 6 HOH A 3 328 3 HOH HOH . F 6 HOH A 4 329 4 HOH HOH . F 6 HOH A 5 330 5 HOH HOH . F 6 HOH A 6 331 6 HOH HOH . F 6 HOH A 7 332 7 HOH HOH . F 6 HOH A 8 333 8 HOH HOH . F 6 HOH A 9 334 9 HOH HOH . F 6 HOH A 10 335 10 HOH HOH . F 6 HOH A 11 336 11 HOH HOH . F 6 HOH A 12 337 12 HOH HOH . F 6 HOH A 13 338 13 HOH HOH . F 6 HOH A 14 339 14 HOH HOH . F 6 HOH A 15 340 15 HOH HOH . F 6 HOH A 16 341 16 HOH HOH . F 6 HOH A 17 342 17 HOH HOH . F 6 HOH A 18 343 18 HOH HOH . F 6 HOH A 19 344 19 HOH HOH . F 6 HOH A 20 345 20 HOH HOH . F 6 HOH A 21 346 21 HOH HOH . F 6 HOH A 22 347 22 HOH HOH . F 6 HOH A 23 348 23 HOH HOH . F 6 HOH A 24 349 24 HOH HOH . F 6 HOH A 25 350 25 HOH HOH . F 6 HOH A 26 351 26 HOH HOH . F 6 HOH A 27 352 27 HOH HOH . F 6 HOH A 28 353 28 HOH HOH . F 6 HOH A 29 354 29 HOH HOH . F 6 HOH A 30 355 30 HOH HOH . F 6 HOH A 31 356 31 HOH HOH . F 6 HOH A 32 357 32 HOH HOH . F 6 HOH A 33 358 33 HOH HOH . F 6 HOH A 34 359 34 HOH HOH . F 6 HOH A 35 360 35 HOH HOH . F 6 HOH A 36 361 36 HOH HOH . F 6 HOH A 37 362 37 HOH HOH . F 6 HOH A 38 363 38 HOH HOH . F 6 HOH A 39 364 39 HOH HOH . F 6 HOH A 40 365 40 HOH HOH . F 6 HOH A 41 366 41 HOH HOH . F 6 HOH A 42 367 42 HOH HOH . F 6 HOH A 43 368 43 HOH HOH . F 6 HOH A 44 369 44 HOH HOH . F 6 HOH A 45 370 45 HOH HOH . F 6 HOH A 46 371 46 HOH HOH . F 6 HOH A 47 372 47 HOH HOH . F 6 HOH A 48 373 48 HOH HOH . F 6 HOH A 49 374 49 HOH HOH . F 6 HOH A 50 375 50 HOH HOH . F 6 HOH A 51 376 51 HOH HOH . F 6 HOH A 52 377 52 HOH HOH . F 6 HOH A 53 378 53 HOH HOH . F 6 HOH A 54 379 54 HOH HOH . F 6 HOH A 55 380 55 HOH HOH . F 6 HOH A 56 381 56 HOH HOH . F 6 HOH A 57 382 57 HOH HOH . F 6 HOH A 58 383 58 HOH HOH . F 6 HOH A 59 384 59 HOH HOH . F 6 HOH A 60 385 60 HOH HOH . F 6 HOH A 61 386 61 HOH HOH . F 6 HOH A 62 387 62 HOH HOH . F 6 HOH A 63 388 63 HOH HOH . F 6 HOH A 64 389 64 HOH HOH . F 6 HOH A 65 390 65 HOH HOH . F 6 HOH A 66 391 66 HOH HOH . F 6 HOH A 67 392 67 HOH HOH . F 6 HOH A 68 393 68 HOH HOH . F 6 HOH A 69 394 69 HOH HOH . F 6 HOH A 70 395 70 HOH HOH . F 6 HOH A 71 396 71 HOH HOH . F 6 HOH A 72 397 72 HOH HOH . F 6 HOH A 73 398 73 HOH HOH . F 6 HOH A 74 399 74 HOH HOH . F 6 HOH A 75 400 75 HOH HOH . F 6 HOH A 76 401 76 HOH HOH . F 6 HOH A 77 402 77 HOH HOH . F 6 HOH A 78 403 78 HOH HOH . F 6 HOH A 79 404 79 HOH HOH . F 6 HOH A 80 405 80 HOH HOH . F 6 HOH A 81 406 81 HOH HOH . F 6 HOH A 82 407 82 HOH HOH . F 6 HOH A 83 408 83 HOH HOH . F 6 HOH A 84 409 84 HOH HOH . F 6 HOH A 85 410 85 HOH HOH . F 6 HOH A 86 411 86 HOH HOH . F 6 HOH A 87 412 87 HOH HOH . F 6 HOH A 88 413 88 HOH HOH . F 6 HOH A 89 414 89 HOH HOH . F 6 HOH A 90 415 90 HOH HOH . F 6 HOH A 91 416 91 HOH HOH . F 6 HOH A 92 417 92 HOH HOH . F 6 HOH A 93 418 93 HOH HOH . F 6 HOH A 94 419 94 HOH HOH . F 6 HOH A 95 420 95 HOH HOH . F 6 HOH A 96 421 96 HOH HOH . F 6 HOH A 97 422 97 HOH HOH . F 6 HOH A 98 423 98 HOH HOH . F 6 HOH A 99 424 99 HOH HOH . F 6 HOH A 100 425 100 HOH HOH . F 6 HOH A 101 426 101 HOH HOH . F 6 HOH A 102 427 102 HOH HOH . F 6 HOH A 103 428 103 HOH HOH . F 6 HOH A 104 429 104 HOH HOH . F 6 HOH A 105 430 105 HOH HOH . F 6 HOH A 106 431 106 HOH HOH . F 6 HOH A 107 432 107 HOH HOH . F 6 HOH A 108 433 108 HOH HOH . F 6 HOH A 109 434 109 HOH HOH . F 6 HOH A 110 435 110 HOH HOH . F 6 HOH A 111 436 111 HOH HOH . F 6 HOH A 112 437 112 HOH HOH . F 6 HOH A 113 438 113 HOH HOH . F 6 HOH A 114 439 114 HOH HOH . F 6 HOH A 115 440 115 HOH HOH . F 6 HOH A 116 441 116 HOH HOH . F 6 HOH A 117 442 117 HOH HOH . F 6 HOH A 118 443 118 HOH HOH . F 6 HOH A 119 444 119 HOH HOH . F 6 HOH A 120 445 120 HOH HOH . F 6 HOH A 121 446 121 HOH HOH . F 6 HOH A 122 447 122 HOH HOH . F 6 HOH A 123 448 123 HOH HOH . F 6 HOH A 124 449 124 HOH HOH . F 6 HOH A 125 450 125 HOH HOH . F 6 HOH A 126 451 126 HOH HOH . F 6 HOH A 127 452 127 HOH HOH . F 6 HOH A 128 453 128 HOH HOH . F 6 HOH A 129 454 129 HOH HOH . F 6 HOH A 130 455 130 HOH HOH . F 6 HOH A 131 456 131 HOH HOH . F 6 HOH A 132 457 132 HOH HOH . F 6 HOH A 133 458 133 HOH HOH . F 6 HOH A 134 459 134 HOH HOH . F 6 HOH A 135 460 135 HOH HOH . F 6 HOH A 136 461 136 HOH HOH . F 6 HOH A 137 462 137 HOH HOH . F 6 HOH A 138 463 138 HOH HOH . F 6 HOH A 139 464 139 HOH HOH . F 6 HOH A 140 465 140 HOH HOH . F 6 HOH A 141 466 141 HOH HOH . F 6 HOH A 142 467 142 HOH HOH . F 6 HOH A 143 468 143 HOH HOH . F 6 HOH A 144 469 144 HOH HOH . F 6 HOH A 145 470 145 HOH HOH . F 6 HOH A 146 471 146 HOH HOH . F 6 HOH A 147 472 147 HOH HOH . F 6 HOH A 148 473 148 HOH HOH . F 6 HOH A 149 474 149 HOH HOH . F 6 HOH A 150 475 150 HOH HOH . F 6 HOH A 151 476 151 HOH HOH . F 6 HOH A 152 477 152 HOH HOH . F 6 HOH A 153 478 153 HOH HOH . F 6 HOH A 154 479 154 HOH HOH . F 6 HOH A 155 480 155 HOH HOH . F 6 HOH A 156 481 156 HOH HOH . F 6 HOH A 157 482 157 HOH HOH . F 6 HOH A 158 483 158 HOH HOH . F 6 HOH A 159 484 159 HOH HOH . F 6 HOH A 160 485 160 HOH HOH . F 6 HOH A 161 486 161 HOH HOH . F 6 HOH A 162 487 162 HOH HOH . F 6 HOH A 163 488 163 HOH HOH . F 6 HOH A 164 489 164 HOH HOH . F 6 HOH A 165 490 165 HOH HOH . F 6 HOH A 166 491 166 HOH HOH . F 6 HOH A 167 492 167 HOH HOH . F 6 HOH A 168 493 168 HOH HOH . F 6 HOH A 169 494 169 HOH HOH . F 6 HOH A 170 495 170 HOH HOH . F 6 HOH A 171 496 171 HOH HOH . F 6 HOH A 172 497 172 HOH HOH . F 6 HOH A 173 498 173 HOH HOH . F 6 HOH A 174 499 174 HOH HOH . F 6 HOH A 175 500 175 HOH HOH . F 6 HOH A 176 501 176 HOH HOH . F 6 HOH A 177 502 177 HOH HOH . F 6 HOH A 178 503 178 HOH HOH . F 6 HOH A 179 504 179 HOH HOH . F 6 HOH A 180 505 180 HOH HOH . F 6 HOH A 181 506 181 HOH HOH . F 6 HOH A 182 507 182 HOH HOH . F 6 HOH A 183 508 183 HOH HOH . F 6 HOH A 184 509 184 HOH HOH . F 6 HOH A 185 510 185 HOH HOH . F 6 HOH A 186 511 186 HOH HOH . F 6 HOH A 187 512 187 HOH HOH . F 6 HOH A 188 513 188 HOH HOH . F 6 HOH A 189 514 189 HOH HOH . F 6 HOH A 190 515 190 HOH HOH . F 6 HOH A 191 516 191 HOH HOH . F 6 HOH A 192 517 192 HOH HOH . F 6 HOH A 193 518 193 HOH HOH . F 6 HOH A 194 519 194 HOH HOH . F 6 HOH A 195 520 195 HOH HOH . F 6 HOH A 196 521 196 HOH HOH . F 6 HOH A 197 522 197 HOH HOH . F 6 HOH A 198 523 198 HOH HOH . F 6 HOH A 199 524 199 HOH HOH . F 6 HOH A 200 525 200 HOH HOH . F 6 HOH A 201 526 201 HOH HOH . F 6 HOH A 202 527 202 HOH HOH . F 6 HOH A 203 528 203 HOH HOH . F 6 HOH A 204 529 204 HOH HOH . F 6 HOH A 205 530 205 HOH HOH . F 6 HOH A 206 531 206 HOH HOH . F 6 HOH A 207 532 207 HOH HOH . F 6 HOH A 208 533 208 HOH HOH . F 6 HOH A 209 534 209 HOH HOH . F 6 HOH A 210 535 210 HOH HOH . F 6 HOH A 211 536 211 HOH HOH . F 6 HOH A 212 537 212 HOH HOH . F 6 HOH A 213 538 213 HOH HOH . F 6 HOH A 214 539 214 HOH HOH . F 6 HOH A 215 540 215 HOH HOH . F 6 HOH A 216 541 216 HOH HOH . F 6 HOH A 217 542 217 HOH HOH . F 6 HOH A 218 543 218 HOH HOH . F 6 HOH A 219 544 219 HOH HOH . F 6 HOH A 220 545 220 HOH HOH . F 6 HOH A 221 546 221 HOH HOH . F 6 HOH A 222 547 222 HOH HOH . F 6 HOH A 223 548 223 HOH HOH . F 6 HOH A 224 549 224 HOH HOH . F 6 HOH A 225 550 225 HOH HOH . F 6 HOH A 226 551 226 HOH HOH . F 6 HOH A 227 552 227 HOH HOH . F 6 HOH A 228 553 228 HOH HOH . F 6 HOH A 229 554 229 HOH HOH . F 6 HOH A 230 555 230 HOH HOH . F 6 HOH A 231 556 231 HOH HOH . F 6 HOH A 232 557 232 HOH HOH . F 6 HOH A 233 558 233 HOH HOH . F 6 HOH A 234 559 234 HOH HOH . F 6 HOH A 235 560 235 HOH HOH . F 6 HOH A 236 561 236 HOH HOH . F 6 HOH A 237 562 237 HOH HOH . F 6 HOH A 238 563 238 HOH HOH . F 6 HOH A 239 564 239 HOH HOH . F 6 HOH A 240 565 240 HOH HOH . F 6 HOH A 241 566 241 HOH HOH . F 6 HOH A 242 567 242 HOH HOH . F 6 HOH A 243 568 243 HOH HOH . F 6 HOH A 244 569 244 HOH HOH . F 6 HOH A 245 570 245 HOH HOH . F 6 HOH A 246 571 246 HOH HOH . F 6 HOH A 247 572 247 HOH HOH . F 6 HOH A 248 573 248 HOH HOH . F 6 HOH A 249 574 249 HOH HOH . F 6 HOH A 250 575 250 HOH HOH . F 6 HOH A 251 576 251 HOH HOH . F 6 HOH A 252 577 252 HOH HOH . F 6 HOH A 253 578 253 HOH HOH . F 6 HOH A 254 579 254 HOH HOH . F 6 HOH A 255 580 255 HOH HOH . F 6 HOH A 256 581 256 HOH HOH . F 6 HOH A 257 582 257 HOH HOH . F 6 HOH A 258 583 258 HOH HOH . F 6 HOH A 259 584 259 HOH HOH . F 6 HOH A 260 585 260 HOH HOH . F 6 HOH A 261 586 261 HOH HOH . F 6 HOH A 262 587 262 HOH HOH . F 6 HOH A 263 588 263 HOH HOH . F 6 HOH A 264 589 264 HOH HOH . F 6 HOH A 265 590 265 HOH HOH . F 6 HOH A 266 591 266 HOH HOH . F 6 HOH A 267 592 267 HOH HOH . F 6 HOH A 268 593 268 HOH HOH . F 6 HOH A 269 594 269 HOH HOH . F 6 HOH A 270 595 270 HOH HOH . F 6 HOH A 271 596 271 HOH HOH . F 6 HOH A 272 597 272 HOH HOH . F 6 HOH A 273 598 273 HOH HOH . F 6 HOH A 274 599 274 HOH HOH . F 6 HOH A 275 600 275 HOH HOH . F 6 HOH A 276 601 276 HOH HOH . F 6 HOH A 277 602 277 HOH HOH . F 6 HOH A 278 603 278 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 C _atom_site.label_entity_id 3 _atom_site.Cartn_x 2.098 _atom_site.Cartn_y 32.442 _atom_site.Cartn_z 23.326 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 20.75 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 323 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 68 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #