data_9Z5Q # _entry.id 9Z5Q # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.409 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 9Z5Q pdb_00009z5q 10.2210/pdb9z5q/pdb WWPDB D_1000302058 ? ? EMDB EMD-73821 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date _pdbx_audit_revision_history.part_number 1 'Structure model' 1 0 2025-12-17 ? 2 'EM metadata' 1 0 2025-12-17 ? 3 FSC 1 0 2025-12-17 ? 4 'Half map' 1 0 2025-12-17 1 5 'Half map' 1 0 2025-12-17 2 6 Image 1 0 2025-12-17 ? 7 'Primary map' 1 0 2025-12-17 ? 8 'Structure model' 1 1 2026-01-28 ? 9 'EM metadata' 1 1 2026-01-28 ? # loop_ _pdbx_audit_revision_details.ordinal _pdbx_audit_revision_details.revision_ordinal _pdbx_audit_revision_details.data_content_type _pdbx_audit_revision_details.provider _pdbx_audit_revision_details.type _pdbx_audit_revision_details.description _pdbx_audit_revision_details.details 1 1 'Structure model' repository 'Initial release' ? ? 2 2 'EM metadata' repository 'Initial release' ? ? 3 3 FSC repository 'Initial release' ? ? 4 4 'Half map' repository 'Initial release' ? ? 5 5 'Half map' repository 'Initial release' ? ? 6 6 Image repository 'Initial release' ? ? 7 7 'Primary map' repository 'Initial release' ? ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 8 'Structure model' 'Data collection' 2 8 'Structure model' 'Database references' 3 9 'EM metadata' 'Database references' 4 9 'EM metadata' 'Experimental summary' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 8 'Structure model' citation 2 8 'Structure model' citation_author 3 8 'Structure model' em_admin 4 9 'EM metadata' citation 5 9 'EM metadata' citation_author 6 9 'EM metadata' em_admin # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 8 'Structure model' '_citation.journal_volume' 2 8 'Structure model' '_citation.page_first' 3 8 'Structure model' '_citation.page_last' 4 8 'Structure model' '_citation_author.identifier_ORCID' 5 8 'Structure model' '_em_admin.last_update' 6 9 'EM metadata' '_citation.journal_volume' 7 9 'EM metadata' '_citation.page_first' 8 9 'EM metadata' '_citation.page_last' 9 9 'EM metadata' '_citation_author.identifier_ORCID' 10 9 'EM metadata' '_em_admin.last_update' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 9Z5Q _pdbx_database_status.recvd_initial_deposition_date 2025-11-12 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # _pdbx_database_related.db_name EMDB _pdbx_database_related.details 'HECT domain of NEDD4-2 complex with a targeted nanobody, nb.C11' _pdbx_database_related.db_id EMD-73821 _pdbx_database_related.content_type 'associated EM volume' # loop_ _pdbx_contact_author.id _pdbx_contact_author.email _pdbx_contact_author.name_first _pdbx_contact_author.name_last _pdbx_contact_author.name_mi _pdbx_contact_author.role _pdbx_contact_author.identifier_ORCID 4 hc2405@cumc.columbia.edu Henry Colecraft ? 'principal investigator/group leader' 0000-0002-2340-8899 5 oc2188@cumc.columbia.edu Oliver Clarke B. 'principal investigator/group leader' 0000-0003-1876-196X # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Afriyie, E.' 1 0009-0007-1073-2765 'Clarke, O.B.' 2 0000-0003-1876-196X # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nat Commun' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2041-1723 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 17 _citation.language ? _citation.page_first 378 _citation.page_last 378 _citation.title 'Ion channel inhibition by targeted recruitment of NEDD4-2 with divalent nanobodies.' _citation.year 2025 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1038/s41467-025-67068-x _citation.pdbx_database_id_PubMed 41353348 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Darko-Boateng, A.' 1 ? primary 'Afriyie, E.' 2 ? primary 'Morgenstern, T.J.' 3 ? primary 'Shanmugam, S.K.' 4 ? primary 'Zou, X.' 5 ? primary 'Laloudakis, Y.D.' 6 ? primary 'Choudhury, P.' 7 ? primary 'Desai, M.' 8 ? primary 'Kass, R.S.' 9 ? primary 'Vallese, F.' 10 ? primary 'Clarke, O.B.' 11 ? primary 'Colecraft, H.M.' 12 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'Nanobody C11 (nb.C11)' 17817.080 1 ? ? ? ? 2 polymer man 'E3 ubiquitin-protein ligase NEDD4-like' 52598.484 1 2.3.2.26,2.3.2.36 ? ? 'HECT domain of NEDD4-2' # _entity_name_com.entity_id 2 _entity_name_com.name 'HECT-type E3 ubiquitin transferase NED4L,NEDD4.2,Nedd4-2' # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no no ;MKYLLPTAAAGLLLLAAQPAMAMDIGINSDPQVQLQESGGGLVQAGGSLRLSCAASGNISDVWYMGWYRQAPGKEREFVA GIAYGTSTYYADSVKGRFTISRDNAKNTVYLQMNSLKPEDTAVYYCAVIITRFVSYPRQHTYWGQGTQVTVSSPLEHHHH HH ; ;MKYLLPTAAAGLLLLAAQPAMAMDIGINSDPQVQLQESGGGLVQAGGSLRLSCAASGNISDVWYMGWYRQAPGKEREFVA GIAYGTSTYYADSVKGRFTISRDNAKNTVYLQMNSLKPEDTAVYYCAVIITRFVSYPRQHTYWGQGTQVTVSSPLEHHHH HH ; A ? 2 'polypeptide(L)' no no ;SYSLNPNDLGPLPPGWEERIHLDGRTFYIDHNSKITQWEDPRLQNPAITGPAVPYSREFKQKYDYFRKKLKKPADIPNRF EMKLHRNNIFEESYRRIMSVKRPDVLKARLWIEFESEKGLDYGGVAREWFFLLSKEMFNPYYGLFEYSATDNYTLQINPN SGLCNEDHLSYFTFIGRVAGLAVFHGKLLDGFFIRPFYKMMLGKQITLNDMESVDSEYYNSLKWILENDPTELDLMFCID EENFGQTYQVDLKPNGSEIMVTNENKREYIDLVIQWRFVNRVQKQMNAFLEGFTELLPIDLIKIFDENELELLMCGLGDV DVNDWRQHSIYKNGYCPNHPVIQWFWKAVLLMDAEKRIRLLQFVTGTSRVPMNGFAELYGSNGPQLFTIEQWGSPEKLPR AHTCFNRLDLPPYETFEDLREKLLMAVENAQGFEGVDMDYKDDDDK ; ;SYSLNPNDLGPLPPGWEERIHLDGRTFYIDHNSKITQWEDPRLQNPAITGPAVPYSREFKQKYDYFRKKLKKPADIPNRF EMKLHRNNIFEESYRRIMSVKRPDVLKARLWIEFESEKGLDYGGVAREWFFLLSKEMFNPYYGLFEYSATDNYTLQINPN SGLCNEDHLSYFTFIGRVAGLAVFHGKLLDGFFIRPFYKMMLGKQITLNDMESVDSEYYNSLKWILENDPTELDLMFCID EENFGQTYQVDLKPNGSEIMVTNENKREYIDLVIQWRFVNRVQKQMNAFLEGFTELLPIDLIKIFDENELELLMCGLGDV DVNDWRQHSIYKNGYCPNHPVIQWFWKAVLLMDAEKRIRLLQFVTGTSRVPMNGFAELYGSNGPQLFTIEQWGSPEKLPR AHTCFNRLDLPPYETFEDLREKLLMAVENAQGFEGVDMDYKDDDDK ; B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MET n 1 2 LYS n 1 3 TYR n 1 4 LEU n 1 5 LEU n 1 6 PRO n 1 7 THR n 1 8 ALA n 1 9 ALA n 1 10 ALA n 1 11 GLY n 1 12 LEU n 1 13 LEU n 1 14 LEU n 1 15 LEU n 1 16 ALA n 1 17 ALA n 1 18 GLN n 1 19 PRO n 1 20 ALA n 1 21 MET n 1 22 ALA n 1 23 MET n 1 24 ASP n 1 25 ILE n 1 26 GLY n 1 27 ILE n 1 28 ASN n 1 29 SER n 1 30 ASP n 1 31 PRO n 1 32 GLN n 1 33 VAL n 1 34 GLN n 1 35 LEU n 1 36 GLN n 1 37 GLU n 1 38 SER n 1 39 GLY n 1 40 GLY n 1 41 GLY n 1 42 LEU n 1 43 VAL n 1 44 GLN n 1 45 ALA n 1 46 GLY n 1 47 GLY n 1 48 SER n 1 49 LEU n 1 50 ARG n 1 51 LEU n 1 52 SER n 1 53 CYS n 1 54 ALA n 1 55 ALA n 1 56 SER n 1 57 GLY n 1 58 ASN n 1 59 ILE n 1 60 SER n 1 61 ASP n 1 62 VAL n 1 63 TRP n 1 64 TYR n 1 65 MET n 1 66 GLY n 1 67 TRP n 1 68 TYR n 1 69 ARG n 1 70 GLN n 1 71 ALA n 1 72 PRO n 1 73 GLY n 1 74 LYS n 1 75 GLU n 1 76 ARG n 1 77 GLU n 1 78 PHE n 1 79 VAL n 1 80 ALA n 1 81 GLY n 1 82 ILE n 1 83 ALA n 1 84 TYR n 1 85 GLY n 1 86 THR n 1 87 SER n 1 88 THR n 1 89 TYR n 1 90 TYR n 1 91 ALA n 1 92 ASP n 1 93 SER n 1 94 VAL n 1 95 LYS n 1 96 GLY n 1 97 ARG n 1 98 PHE n 1 99 THR n 1 100 ILE n 1 101 SER n 1 102 ARG n 1 103 ASP n 1 104 ASN n 1 105 ALA n 1 106 LYS n 1 107 ASN n 1 108 THR n 1 109 VAL n 1 110 TYR n 1 111 LEU n 1 112 GLN n 1 113 MET n 1 114 ASN n 1 115 SER n 1 116 LEU n 1 117 LYS n 1 118 PRO n 1 119 GLU n 1 120 ASP n 1 121 THR n 1 122 ALA n 1 123 VAL n 1 124 TYR n 1 125 TYR n 1 126 CYS n 1 127 ALA n 1 128 VAL n 1 129 ILE n 1 130 ILE n 1 131 THR n 1 132 ARG n 1 133 PHE n 1 134 VAL n 1 135 SER n 1 136 TYR n 1 137 PRO n 1 138 ARG n 1 139 GLN n 1 140 HIS n 1 141 THR n 1 142 TYR n 1 143 TRP n 1 144 GLY n 1 145 GLN n 1 146 GLY n 1 147 THR n 1 148 GLN n 1 149 VAL n 1 150 THR n 1 151 VAL n 1 152 SER n 1 153 SER n 1 154 PRO n 1 155 LEU n 1 156 GLU n 1 157 HIS n 1 158 HIS n 1 159 HIS n 1 160 HIS n 1 161 HIS n 1 162 HIS n 2 1 SER n 2 2 TYR n 2 3 SER n 2 4 LEU n 2 5 ASN n 2 6 PRO n 2 7 ASN n 2 8 ASP n 2 9 LEU n 2 10 GLY n 2 11 PRO n 2 12 LEU n 2 13 PRO n 2 14 PRO n 2 15 GLY n 2 16 TRP n 2 17 GLU n 2 18 GLU n 2 19 ARG n 2 20 ILE n 2 21 HIS n 2 22 LEU n 2 23 ASP n 2 24 GLY n 2 25 ARG n 2 26 THR n 2 27 PHE n 2 28 TYR n 2 29 ILE n 2 30 ASP n 2 31 HIS n 2 32 ASN n 2 33 SER n 2 34 LYS n 2 35 ILE n 2 36 THR n 2 37 GLN n 2 38 TRP n 2 39 GLU n 2 40 ASP n 2 41 PRO n 2 42 ARG n 2 43 LEU n 2 44 GLN n 2 45 ASN n 2 46 PRO n 2 47 ALA n 2 48 ILE n 2 49 THR n 2 50 GLY n 2 51 PRO n 2 52 ALA n 2 53 VAL n 2 54 PRO n 2 55 TYR n 2 56 SER n 2 57 ARG n 2 58 GLU n 2 59 PHE n 2 60 LYS n 2 61 GLN n 2 62 LYS n 2 63 TYR n 2 64 ASP n 2 65 TYR n 2 66 PHE n 2 67 ARG n 2 68 LYS n 2 69 LYS n 2 70 LEU n 2 71 LYS n 2 72 LYS n 2 73 PRO n 2 74 ALA n 2 75 ASP n 2 76 ILE n 2 77 PRO n 2 78 ASN n 2 79 ARG n 2 80 PHE n 2 81 GLU n 2 82 MET n 2 83 LYS n 2 84 LEU n 2 85 HIS n 2 86 ARG n 2 87 ASN n 2 88 ASN n 2 89 ILE n 2 90 PHE n 2 91 GLU n 2 92 GLU n 2 93 SER n 2 94 TYR n 2 95 ARG n 2 96 ARG n 2 97 ILE n 2 98 MET n 2 99 SER n 2 100 VAL n 2 101 LYS n 2 102 ARG n 2 103 PRO n 2 104 ASP n 2 105 VAL n 2 106 LEU n 2 107 LYS n 2 108 ALA n 2 109 ARG n 2 110 LEU n 2 111 TRP n 2 112 ILE n 2 113 GLU n 2 114 PHE n 2 115 GLU n 2 116 SER n 2 117 GLU n 2 118 LYS n 2 119 GLY n 2 120 LEU n 2 121 ASP n 2 122 TYR n 2 123 GLY n 2 124 GLY n 2 125 VAL n 2 126 ALA n 2 127 ARG n 2 128 GLU n 2 129 TRP n 2 130 PHE n 2 131 PHE n 2 132 LEU n 2 133 LEU n 2 134 SER n 2 135 LYS n 2 136 GLU n 2 137 MET n 2 138 PHE n 2 139 ASN n 2 140 PRO n 2 141 TYR n 2 142 TYR n 2 143 GLY n 2 144 LEU n 2 145 PHE n 2 146 GLU n 2 147 TYR n 2 148 SER n 2 149 ALA n 2 150 THR n 2 151 ASP n 2 152 ASN n 2 153 TYR n 2 154 THR n 2 155 LEU n 2 156 GLN n 2 157 ILE n 2 158 ASN n 2 159 PRO n 2 160 ASN n 2 161 SER n 2 162 GLY n 2 163 LEU n 2 164 CYS n 2 165 ASN n 2 166 GLU n 2 167 ASP n 2 168 HIS n 2 169 LEU n 2 170 SER n 2 171 TYR n 2 172 PHE n 2 173 THR n 2 174 PHE n 2 175 ILE n 2 176 GLY n 2 177 ARG n 2 178 VAL n 2 179 ALA n 2 180 GLY n 2 181 LEU n 2 182 ALA n 2 183 VAL n 2 184 PHE n 2 185 HIS n 2 186 GLY n 2 187 LYS n 2 188 LEU n 2 189 LEU n 2 190 ASP n 2 191 GLY n 2 192 PHE n 2 193 PHE n 2 194 ILE n 2 195 ARG n 2 196 PRO n 2 197 PHE n 2 198 TYR n 2 199 LYS n 2 200 MET n 2 201 MET n 2 202 LEU n 2 203 GLY n 2 204 LYS n 2 205 GLN n 2 206 ILE n 2 207 THR n 2 208 LEU n 2 209 ASN n 2 210 ASP n 2 211 MET n 2 212 GLU n 2 213 SER n 2 214 VAL n 2 215 ASP n 2 216 SER n 2 217 GLU n 2 218 TYR n 2 219 TYR n 2 220 ASN n 2 221 SER n 2 222 LEU n 2 223 LYS n 2 224 TRP n 2 225 ILE n 2 226 LEU n 2 227 GLU n 2 228 ASN n 2 229 ASP n 2 230 PRO n 2 231 THR n 2 232 GLU n 2 233 LEU n 2 234 ASP n 2 235 LEU n 2 236 MET n 2 237 PHE n 2 238 CYS n 2 239 ILE n 2 240 ASP n 2 241 GLU n 2 242 GLU n 2 243 ASN n 2 244 PHE n 2 245 GLY n 2 246 GLN n 2 247 THR n 2 248 TYR n 2 249 GLN n 2 250 VAL n 2 251 ASP n 2 252 LEU n 2 253 LYS n 2 254 PRO n 2 255 ASN n 2 256 GLY n 2 257 SER n 2 258 GLU n 2 259 ILE n 2 260 MET n 2 261 VAL n 2 262 THR n 2 263 ASN n 2 264 GLU n 2 265 ASN n 2 266 LYS n 2 267 ARG n 2 268 GLU n 2 269 TYR n 2 270 ILE n 2 271 ASP n 2 272 LEU n 2 273 VAL n 2 274 ILE n 2 275 GLN n 2 276 TRP n 2 277 ARG n 2 278 PHE n 2 279 VAL n 2 280 ASN n 2 281 ARG n 2 282 VAL n 2 283 GLN n 2 284 LYS n 2 285 GLN n 2 286 MET n 2 287 ASN n 2 288 ALA n 2 289 PHE n 2 290 LEU n 2 291 GLU n 2 292 GLY n 2 293 PHE n 2 294 THR n 2 295 GLU n 2 296 LEU n 2 297 LEU n 2 298 PRO n 2 299 ILE n 2 300 ASP n 2 301 LEU n 2 302 ILE n 2 303 LYS n 2 304 ILE n 2 305 PHE n 2 306 ASP n 2 307 GLU n 2 308 ASN n 2 309 GLU n 2 310 LEU n 2 311 GLU n 2 312 LEU n 2 313 LEU n 2 314 MET n 2 315 CYS n 2 316 GLY n 2 317 LEU n 2 318 GLY n 2 319 ASP n 2 320 VAL n 2 321 ASP n 2 322 VAL n 2 323 ASN n 2 324 ASP n 2 325 TRP n 2 326 ARG n 2 327 GLN n 2 328 HIS n 2 329 SER n 2 330 ILE n 2 331 TYR n 2 332 LYS n 2 333 ASN n 2 334 GLY n 2 335 TYR n 2 336 CYS n 2 337 PRO n 2 338 ASN n 2 339 HIS n 2 340 PRO n 2 341 VAL n 2 342 ILE n 2 343 GLN n 2 344 TRP n 2 345 PHE n 2 346 TRP n 2 347 LYS n 2 348 ALA n 2 349 VAL n 2 350 LEU n 2 351 LEU n 2 352 MET n 2 353 ASP n 2 354 ALA n 2 355 GLU n 2 356 LYS n 2 357 ARG n 2 358 ILE n 2 359 ARG n 2 360 LEU n 2 361 LEU n 2 362 GLN n 2 363 PHE n 2 364 VAL n 2 365 THR n 2 366 GLY n 2 367 THR n 2 368 SER n 2 369 ARG n 2 370 VAL n 2 371 PRO n 2 372 MET n 2 373 ASN n 2 374 GLY n 2 375 PHE n 2 376 ALA n 2 377 GLU n 2 378 LEU n 2 379 TYR n 2 380 GLY n 2 381 SER n 2 382 ASN n 2 383 GLY n 2 384 PRO n 2 385 GLN n 2 386 LEU n 2 387 PHE n 2 388 THR n 2 389 ILE n 2 390 GLU n 2 391 GLN n 2 392 TRP n 2 393 GLY n 2 394 SER n 2 395 PRO n 2 396 GLU n 2 397 LYS n 2 398 LEU n 2 399 PRO n 2 400 ARG n 2 401 ALA n 2 402 HIS n 2 403 THR n 2 404 CYS n 2 405 PHE n 2 406 ASN n 2 407 ARG n 2 408 LEU n 2 409 ASP n 2 410 LEU n 2 411 PRO n 2 412 PRO n 2 413 TYR n 2 414 GLU n 2 415 THR n 2 416 PHE n 2 417 GLU n 2 418 ASP n 2 419 LEU n 2 420 ARG n 2 421 GLU n 2 422 LYS n 2 423 LEU n 2 424 LEU n 2 425 MET n 2 426 ALA n 2 427 VAL n 2 428 GLU n 2 429 ASN n 2 430 ALA n 2 431 GLN n 2 432 GLY n 2 433 PHE n 2 434 GLU n 2 435 GLY n 2 436 VAL n 2 437 ASP n 2 438 MET n 2 439 ASP n 2 440 TYR n 2 441 LYS n 2 442 ASP n 2 443 ASP n 2 444 ASP n 2 445 ASP n 2 446 LYS n # loop_ _entity_src_gen.entity_id _entity_src_gen.pdbx_src_id _entity_src_gen.pdbx_alt_source_flag _entity_src_gen.pdbx_seq_type _entity_src_gen.pdbx_beg_seq_num _entity_src_gen.pdbx_end_seq_num _entity_src_gen.gene_src_common_name _entity_src_gen.gene_src_genus _entity_src_gen.pdbx_gene_src_gene _entity_src_gen.gene_src_species _entity_src_gen.gene_src_strain _entity_src_gen.gene_src_tissue _entity_src_gen.gene_src_tissue_fraction _entity_src_gen.gene_src_details _entity_src_gen.pdbx_gene_src_fragment _entity_src_gen.pdbx_gene_src_scientific_name _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id _entity_src_gen.pdbx_gene_src_variant _entity_src_gen.pdbx_gene_src_cell_line _entity_src_gen.pdbx_gene_src_atcc _entity_src_gen.pdbx_gene_src_organ _entity_src_gen.pdbx_gene_src_organelle _entity_src_gen.pdbx_gene_src_cell _entity_src_gen.pdbx_gene_src_cellular_location _entity_src_gen.host_org_common_name _entity_src_gen.pdbx_host_org_scientific_name _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id _entity_src_gen.host_org_genus _entity_src_gen.pdbx_host_org_gene _entity_src_gen.pdbx_host_org_organ _entity_src_gen.host_org_species _entity_src_gen.pdbx_host_org_tissue _entity_src_gen.pdbx_host_org_tissue_fraction _entity_src_gen.pdbx_host_org_strain _entity_src_gen.pdbx_host_org_variant _entity_src_gen.pdbx_host_org_cell_line _entity_src_gen.pdbx_host_org_atcc _entity_src_gen.pdbx_host_org_culture_collection _entity_src_gen.pdbx_host_org_cell _entity_src_gen.pdbx_host_org_organelle _entity_src_gen.pdbx_host_org_cellular_location _entity_src_gen.pdbx_host_org_vector_type _entity_src_gen.pdbx_host_org_vector _entity_src_gen.host_org_details _entity_src_gen.expression_system_id _entity_src_gen.plasmid_name _entity_src_gen.plasmid_details _entity_src_gen.pdbx_description 1 1 sample 'Biological sequence' 1 162 ? ? ? ? ? ? ? ? ? 'Lama glama' 9844 ? ? ? ? ? ? ? ? 'Escherichia coli BL21(DE3)' 469008 ? ? ? ? ? ? ? pLysS ? ? ? ? ? ? Plasmid ? 'NYCOMPS expression plasmid' ? pET24 ? ? 2 1 sample 'Biological sequence' 1 446 human ? 'NEDD4L, KIAA0439, NEDL3' ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Escherichia coli BL21(DE3)' 469008 ? ? ? ? ? ? ? pLysS ? ? ? ? ? ? Plasmid ? 'NYCOMPS expression plasmid' ? pET24 ? ? # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 MET 1 -30 ? ? ? A . n A 1 2 LYS 2 -29 ? ? ? A . n A 1 3 TYR 3 -28 ? ? ? A . n A 1 4 LEU 4 -27 ? ? ? A . n A 1 5 LEU 5 -26 ? ? ? A . n A 1 6 PRO 6 -25 ? ? ? A . n A 1 7 THR 7 -24 ? ? ? A . n A 1 8 ALA 8 -23 ? ? ? A . n A 1 9 ALA 9 -22 ? ? ? A . n A 1 10 ALA 10 -21 ? ? ? A . n A 1 11 GLY 11 -20 ? ? ? A . n A 1 12 LEU 12 -19 ? ? ? A . n A 1 13 LEU 13 -18 ? ? ? A . n A 1 14 LEU 14 -17 ? ? ? A . n A 1 15 LEU 15 -16 ? ? ? A . n A 1 16 ALA 16 -15 ? ? ? A . n A 1 17 ALA 17 -14 ? ? ? A . n A 1 18 GLN 18 -13 ? ? ? A . n A 1 19 PRO 19 -12 ? ? ? A . n A 1 20 ALA 20 -11 ? ? ? A . n A 1 21 MET 21 -10 ? ? ? A . n A 1 22 ALA 22 -9 ? ? ? A . n A 1 23 MET 23 -8 ? ? ? A . n A 1 24 ASP 24 -7 ? ? ? A . n A 1 25 ILE 25 -6 ? ? ? A . n A 1 26 GLY 26 -5 ? ? ? A . n A 1 27 ILE 27 -4 ? ? ? A . n A 1 28 ASN 28 -3 ? ? ? A . n A 1 29 SER 29 -2 ? ? ? A . n A 1 30 ASP 30 -1 ? ? ? A . n A 1 31 PRO 31 0 ? ? ? A . n A 1 32 GLN 32 1 1 GLN GLN A . n A 1 33 VAL 33 2 2 VAL VAL A . n A 1 34 GLN 34 3 3 GLN GLN A . n A 1 35 LEU 35 4 4 LEU LEU A . n A 1 36 GLN 36 5 5 GLN GLN A . n A 1 37 GLU 37 6 6 GLU GLU A . n A 1 38 SER 38 7 7 SER SER A . n A 1 39 GLY 39 8 8 GLY GLY A . n A 1 40 GLY 40 9 9 GLY GLY A . n A 1 41 GLY 41 10 10 GLY GLY A . n A 1 42 LEU 42 11 11 LEU LEU A . n A 1 43 VAL 43 12 12 VAL VAL A . n A 1 44 GLN 44 13 13 GLN GLN A . n A 1 45 ALA 45 14 14 ALA ALA A . n A 1 46 GLY 46 15 15 GLY GLY A . n A 1 47 GLY 47 16 16 GLY GLY A . n A 1 48 SER 48 17 17 SER SER A . n A 1 49 LEU 49 18 18 LEU LEU A . n A 1 50 ARG 50 19 19 ARG ARG A . n A 1 51 LEU 51 20 20 LEU LEU A . n A 1 52 SER 52 21 21 SER SER A . n A 1 53 CYS 53 22 22 CYS CYS A . n A 1 54 ALA 54 23 23 ALA ALA A . n A 1 55 ALA 55 24 24 ALA ALA A . n A 1 56 SER 56 25 25 SER SER A . n A 1 57 GLY 57 26 26 GLY GLY A . n A 1 58 ASN 58 27 27 ASN ASN A . n A 1 59 ILE 59 28 28 ILE ILE A . n A 1 60 SER 60 29 29 SER SER A . n A 1 61 ASP 61 30 30 ASP ASP A . n A 1 62 VAL 62 31 31 VAL VAL A . n A 1 63 TRP 63 32 32 TRP TRP A . n A 1 64 TYR 64 33 33 TYR TYR A . n A 1 65 MET 65 34 34 MET MET A . n A 1 66 GLY 66 35 35 GLY GLY A . n A 1 67 TRP 67 36 36 TRP TRP A . n A 1 68 TYR 68 37 37 TYR TYR A . n A 1 69 ARG 69 38 38 ARG ARG A . n A 1 70 GLN 70 39 39 GLN GLN A . n A 1 71 ALA 71 40 40 ALA ALA A . n A 1 72 PRO 72 41 41 PRO PRO A . n A 1 73 GLY 73 42 42 GLY GLY A . n A 1 74 LYS 74 43 43 LYS LYS A . n A 1 75 GLU 75 44 44 GLU GLU A . n A 1 76 ARG 76 45 45 ARG ARG A . n A 1 77 GLU 77 46 46 GLU GLU A . n A 1 78 PHE 78 47 47 PHE PHE A . n A 1 79 VAL 79 48 48 VAL VAL A . n A 1 80 ALA 80 49 49 ALA ALA A . n A 1 81 GLY 81 50 50 GLY GLY A . n A 1 82 ILE 82 51 51 ILE ILE A . n A 1 83 ALA 83 52 52 ALA ALA A . n A 1 84 TYR 84 53 53 TYR TYR A . n A 1 85 GLY 85 54 54 GLY GLY A . n A 1 86 THR 86 55 55 THR THR A . n A 1 87 SER 87 56 56 SER SER A . n A 1 88 THR 88 57 57 THR THR A . n A 1 89 TYR 89 58 58 TYR TYR A . n A 1 90 TYR 90 59 59 TYR TYR A . n A 1 91 ALA 91 60 60 ALA ALA A . n A 1 92 ASP 92 61 61 ASP ASP A . n A 1 93 SER 93 62 62 SER SER A . n A 1 94 VAL 94 63 63 VAL VAL A . n A 1 95 LYS 95 64 64 LYS LYS A . n A 1 96 GLY 96 65 65 GLY GLY A . n A 1 97 ARG 97 66 66 ARG ARG A . n A 1 98 PHE 98 67 67 PHE PHE A . n A 1 99 THR 99 68 68 THR THR A . n A 1 100 ILE 100 69 69 ILE ILE A . n A 1 101 SER 101 70 70 SER SER A . n A 1 102 ARG 102 71 71 ARG ARG A . n A 1 103 ASP 103 72 72 ASP ASP A . n A 1 104 ASN 104 73 73 ASN ASN A . n A 1 105 ALA 105 74 74 ALA ALA A . n A 1 106 LYS 106 75 75 LYS LYS A . n A 1 107 ASN 107 76 76 ASN ASN A . n A 1 108 THR 108 77 77 THR THR A . n A 1 109 VAL 109 78 78 VAL VAL A . n A 1 110 TYR 110 79 79 TYR TYR A . n A 1 111 LEU 111 80 80 LEU LEU A . n A 1 112 GLN 112 81 81 GLN GLN A . n A 1 113 MET 113 82 82 MET MET A . n A 1 114 ASN 114 83 83 ASN ASN A . n A 1 115 SER 115 84 84 SER SER A . n A 1 116 LEU 116 85 85 LEU LEU A . n A 1 117 LYS 117 86 86 LYS LYS A . n A 1 118 PRO 118 87 87 PRO PRO A . n A 1 119 GLU 119 88 88 GLU GLU A . n A 1 120 ASP 120 89 89 ASP ASP A . n A 1 121 THR 121 90 90 THR THR A . n A 1 122 ALA 122 91 91 ALA ALA A . n A 1 123 VAL 123 92 92 VAL VAL A . n A 1 124 TYR 124 93 93 TYR TYR A . n A 1 125 TYR 125 94 94 TYR TYR A . n A 1 126 CYS 126 95 95 CYS CYS A . n A 1 127 ALA 127 96 96 ALA ALA A . n A 1 128 VAL 128 97 97 VAL VAL A . n A 1 129 ILE 129 98 98 ILE ILE A . n A 1 130 ILE 130 99 99 ILE ILE A . n A 1 131 THR 131 100 100 THR THR A . n A 1 132 ARG 132 101 101 ARG ARG A . n A 1 133 PHE 133 102 102 PHE PHE A . n A 1 134 VAL 134 103 103 VAL VAL A . n A 1 135 SER 135 104 104 SER SER A . n A 1 136 TYR 136 105 105 TYR TYR A . n A 1 137 PRO 137 106 106 PRO PRO A . n A 1 138 ARG 138 107 107 ARG ARG A . n A 1 139 GLN 139 108 108 GLN GLN A . n A 1 140 HIS 140 109 109 HIS HIS A . n A 1 141 THR 141 110 110 THR THR A . n A 1 142 TYR 142 111 111 TYR TYR A . n A 1 143 TRP 143 112 112 TRP TRP A . n A 1 144 GLY 144 113 113 GLY GLY A . n A 1 145 GLN 145 114 114 GLN GLN A . n A 1 146 GLY 146 115 115 GLY GLY A . n A 1 147 THR 147 116 116 THR THR A . n A 1 148 GLN 148 117 117 GLN GLN A . n A 1 149 VAL 149 118 118 VAL VAL A . n A 1 150 THR 150 119 119 THR THR A . n A 1 151 VAL 151 120 120 VAL VAL A . n A 1 152 SER 152 121 121 SER SER A . n A 1 153 SER 153 122 122 SER SER A . n A 1 154 PRO 154 123 ? ? ? A . n A 1 155 LEU 155 124 ? ? ? A . n A 1 156 GLU 156 125 ? ? ? A . n A 1 157 HIS 157 126 ? ? ? A . n A 1 158 HIS 158 127 ? ? ? A . n A 1 159 HIS 159 128 ? ? ? A . n A 1 160 HIS 160 129 ? ? ? A . n A 1 161 HIS 161 130 ? ? ? A . n A 1 162 HIS 162 131 ? ? ? A . n B 2 1 SER 1 539 ? ? ? B . n B 2 2 TYR 2 540 ? ? ? B . n B 2 3 SER 3 541 ? ? ? B . n B 2 4 LEU 4 542 ? ? ? B . n B 2 5 ASN 5 543 ? ? ? B . n B 2 6 PRO 6 544 ? ? ? B . n B 2 7 ASN 7 545 545 ASN ASN B . n B 2 8 ASP 8 546 546 ASP ASP B . n B 2 9 LEU 9 547 547 LEU LEU B . n B 2 10 GLY 10 548 548 GLY GLY B . n B 2 11 PRO 11 549 549 PRO PRO B . n B 2 12 LEU 12 550 550 LEU LEU B . n B 2 13 PRO 13 551 551 PRO PRO B . n B 2 14 PRO 14 552 552 PRO PRO B . n B 2 15 GLY 15 553 553 GLY GLY B . n B 2 16 TRP 16 554 554 TRP TRP B . n B 2 17 GLU 17 555 555 GLU GLU B . n B 2 18 GLU 18 556 556 GLU GLU B . n B 2 19 ARG 19 557 557 ARG ARG B . n B 2 20 ILE 20 558 558 ILE ILE B . n B 2 21 HIS 21 559 559 HIS HIS B . n B 2 22 LEU 22 560 560 LEU LEU B . n B 2 23 ASP 23 561 561 ASP ASP B . n B 2 24 GLY 24 562 562 GLY GLY B . n B 2 25 ARG 25 563 563 ARG ARG B . n B 2 26 THR 26 564 564 THR THR B . n B 2 27 PHE 27 565 565 PHE PHE B . n B 2 28 TYR 28 566 566 TYR TYR B . n B 2 29 ILE 29 567 567 ILE ILE B . n B 2 30 ASP 30 568 568 ASP ASP B . n B 2 31 HIS 31 569 569 HIS HIS B . n B 2 32 ASN 32 570 570 ASN ASN B . n B 2 33 SER 33 571 571 SER SER B . n B 2 34 LYS 34 572 572 LYS LYS B . n B 2 35 ILE 35 573 573 ILE ILE B . n B 2 36 THR 36 574 574 THR THR B . n B 2 37 GLN 37 575 575 GLN GLN B . n B 2 38 TRP 38 576 576 TRP TRP B . n B 2 39 GLU 39 577 577 GLU GLU B . n B 2 40 ASP 40 578 578 ASP ASP B . n B 2 41 PRO 41 579 579 PRO PRO B . n B 2 42 ARG 42 580 580 ARG ARG B . n B 2 43 LEU 43 581 ? ? ? B . n B 2 44 GLN 44 582 ? ? ? B . n B 2 45 ASN 45 583 ? ? ? B . n B 2 46 PRO 46 584 ? ? ? B . n B 2 47 ALA 47 585 ? ? ? B . n B 2 48 ILE 48 586 ? ? ? B . n B 2 49 THR 49 587 ? ? ? B . n B 2 50 GLY 50 588 588 GLY GLY B . n B 2 51 PRO 51 589 589 PRO PRO B . n B 2 52 ALA 52 590 590 ALA ALA B . n B 2 53 VAL 53 591 591 VAL VAL B . n B 2 54 PRO 54 592 592 PRO PRO B . n B 2 55 TYR 55 593 593 TYR TYR B . n B 2 56 SER 56 594 594 SER SER B . n B 2 57 ARG 57 595 595 ARG ARG B . n B 2 58 GLU 58 596 596 GLU GLU B . n B 2 59 PHE 59 597 597 PHE PHE B . n B 2 60 LYS 60 598 598 LYS LYS B . n B 2 61 GLN 61 599 599 GLN GLN B . n B 2 62 LYS 62 600 600 LYS LYS B . n B 2 63 TYR 63 601 601 TYR TYR B . n B 2 64 ASP 64 602 602 ASP ASP B . n B 2 65 TYR 65 603 603 TYR TYR B . n B 2 66 PHE 66 604 604 PHE PHE B . n B 2 67 ARG 67 605 605 ARG ARG B . n B 2 68 LYS 68 606 606 LYS LYS B . n B 2 69 LYS 69 607 607 LYS LYS B . n B 2 70 LEU 70 608 608 LEU LEU B . n B 2 71 LYS 71 609 609 LYS LYS B . n B 2 72 LYS 72 610 610 LYS LYS B . n B 2 73 PRO 73 611 611 PRO PRO B . n B 2 74 ALA 74 612 612 ALA ALA B . n B 2 75 ASP 75 613 613 ASP ASP B . n B 2 76 ILE 76 614 614 ILE ILE B . n B 2 77 PRO 77 615 615 PRO PRO B . n B 2 78 ASN 78 616 616 ASN ASN B . n B 2 79 ARG 79 617 617 ARG ARG B . n B 2 80 PHE 80 618 618 PHE PHE B . n B 2 81 GLU 81 619 619 GLU GLU B . n B 2 82 MET 82 620 620 MET MET B . n B 2 83 LYS 83 621 621 LYS LYS B . n B 2 84 LEU 84 622 622 LEU LEU B . n B 2 85 HIS 85 623 623 HIS HIS B . n B 2 86 ARG 86 624 624 ARG ARG B . n B 2 87 ASN 87 625 625 ASN ASN B . n B 2 88 ASN 88 626 626 ASN ASN B . n B 2 89 ILE 89 627 627 ILE ILE B . n B 2 90 PHE 90 628 628 PHE PHE B . n B 2 91 GLU 91 629 629 GLU GLU B . n B 2 92 GLU 92 630 630 GLU GLU B . n B 2 93 SER 93 631 631 SER SER B . n B 2 94 TYR 94 632 632 TYR TYR B . n B 2 95 ARG 95 633 633 ARG ARG B . n B 2 96 ARG 96 634 634 ARG ARG B . n B 2 97 ILE 97 635 635 ILE ILE B . n B 2 98 MET 98 636 636 MET MET B . n B 2 99 SER 99 637 637 SER SER B . n B 2 100 VAL 100 638 638 VAL VAL B . n B 2 101 LYS 101 639 639 LYS LYS B . n B 2 102 ARG 102 640 640 ARG ARG B . n B 2 103 PRO 103 641 641 PRO PRO B . n B 2 104 ASP 104 642 642 ASP ASP B . n B 2 105 VAL 105 643 643 VAL VAL B . n B 2 106 LEU 106 644 644 LEU LEU B . n B 2 107 LYS 107 645 645 LYS LYS B . n B 2 108 ALA 108 646 646 ALA ALA B . n B 2 109 ARG 109 647 647 ARG ARG B . n B 2 110 LEU 110 648 648 LEU LEU B . n B 2 111 TRP 111 649 649 TRP TRP B . n B 2 112 ILE 112 650 650 ILE ILE B . n B 2 113 GLU 113 651 651 GLU GLU B . n B 2 114 PHE 114 652 652 PHE PHE B . n B 2 115 GLU 115 653 653 GLU GLU B . n B 2 116 SER 116 654 654 SER SER B . n B 2 117 GLU 117 655 655 GLU GLU B . n B 2 118 LYS 118 656 656 LYS LYS B . n B 2 119 GLY 119 657 657 GLY GLY B . n B 2 120 LEU 120 658 658 LEU LEU B . n B 2 121 ASP 121 659 659 ASP ASP B . n B 2 122 TYR 122 660 660 TYR TYR B . n B 2 123 GLY 123 661 661 GLY GLY B . n B 2 124 GLY 124 662 662 GLY GLY B . n B 2 125 VAL 125 663 663 VAL VAL B . n B 2 126 ALA 126 664 664 ALA ALA B . n B 2 127 ARG 127 665 665 ARG ARG B . n B 2 128 GLU 128 666 666 GLU GLU B . n B 2 129 TRP 129 667 667 TRP TRP B . n B 2 130 PHE 130 668 668 PHE PHE B . n B 2 131 PHE 131 669 669 PHE PHE B . n B 2 132 LEU 132 670 670 LEU LEU B . n B 2 133 LEU 133 671 671 LEU LEU B . n B 2 134 SER 134 672 672 SER SER B . n B 2 135 LYS 135 673 673 LYS LYS B . n B 2 136 GLU 136 674 674 GLU GLU B . n B 2 137 MET 137 675 675 MET MET B . n B 2 138 PHE 138 676 676 PHE PHE B . n B 2 139 ASN 139 677 677 ASN ASN B . n B 2 140 PRO 140 678 678 PRO PRO B . n B 2 141 TYR 141 679 679 TYR TYR B . n B 2 142 TYR 142 680 680 TYR TYR B . n B 2 143 GLY 143 681 681 GLY GLY B . n B 2 144 LEU 144 682 682 LEU LEU B . n B 2 145 PHE 145 683 683 PHE PHE B . n B 2 146 GLU 146 684 684 GLU GLU B . n B 2 147 TYR 147 685 685 TYR TYR B . n B 2 148 SER 148 686 686 SER SER B . n B 2 149 ALA 149 687 687 ALA ALA B . n B 2 150 THR 150 688 688 THR THR B . n B 2 151 ASP 151 689 689 ASP ASP B . n B 2 152 ASN 152 690 690 ASN ASN B . n B 2 153 TYR 153 691 691 TYR TYR B . n B 2 154 THR 154 692 692 THR THR B . n B 2 155 LEU 155 693 693 LEU LEU B . n B 2 156 GLN 156 694 694 GLN GLN B . n B 2 157 ILE 157 695 695 ILE ILE B . n B 2 158 ASN 158 696 696 ASN ASN B . n B 2 159 PRO 159 697 697 PRO PRO B . n B 2 160 ASN 160 698 698 ASN ASN B . n B 2 161 SER 161 699 699 SER SER B . n B 2 162 GLY 162 700 700 GLY GLY B . n B 2 163 LEU 163 701 701 LEU LEU B . n B 2 164 CYS 164 702 702 CYS CYS B . n B 2 165 ASN 165 703 703 ASN ASN B . n B 2 166 GLU 166 704 704 GLU GLU B . n B 2 167 ASP 167 705 705 ASP ASP B . n B 2 168 HIS 168 706 706 HIS HIS B . n B 2 169 LEU 169 707 707 LEU LEU B . n B 2 170 SER 170 708 708 SER SER B . n B 2 171 TYR 171 709 709 TYR TYR B . n B 2 172 PHE 172 710 710 PHE PHE B . n B 2 173 THR 173 711 711 THR THR B . n B 2 174 PHE 174 712 712 PHE PHE B . n B 2 175 ILE 175 713 713 ILE ILE B . n B 2 176 GLY 176 714 714 GLY GLY B . n B 2 177 ARG 177 715 715 ARG ARG B . n B 2 178 VAL 178 716 716 VAL VAL B . n B 2 179 ALA 179 717 717 ALA ALA B . n B 2 180 GLY 180 718 718 GLY GLY B . n B 2 181 LEU 181 719 719 LEU LEU B . n B 2 182 ALA 182 720 720 ALA ALA B . n B 2 183 VAL 183 721 721 VAL VAL B . n B 2 184 PHE 184 722 722 PHE PHE B . n B 2 185 HIS 185 723 723 HIS HIS B . n B 2 186 GLY 186 724 724 GLY GLY B . n B 2 187 LYS 187 725 725 LYS LYS B . n B 2 188 LEU 188 726 726 LEU LEU B . n B 2 189 LEU 189 727 727 LEU LEU B . n B 2 190 ASP 190 728 728 ASP ASP B . n B 2 191 GLY 191 729 729 GLY GLY B . n B 2 192 PHE 192 730 730 PHE PHE B . n B 2 193 PHE 193 731 731 PHE PHE B . n B 2 194 ILE 194 732 732 ILE ILE B . n B 2 195 ARG 195 733 733 ARG ARG B . n B 2 196 PRO 196 734 734 PRO PRO B . n B 2 197 PHE 197 735 735 PHE PHE B . n B 2 198 TYR 198 736 736 TYR TYR B . n B 2 199 LYS 199 737 737 LYS LYS B . n B 2 200 MET 200 738 738 MET MET B . n B 2 201 MET 201 739 739 MET MET B . n B 2 202 LEU 202 740 740 LEU LEU B . n B 2 203 GLY 203 741 741 GLY GLY B . n B 2 204 LYS 204 742 742 LYS LYS B . n B 2 205 GLN 205 743 743 GLN GLN B . n B 2 206 ILE 206 744 744 ILE ILE B . n B 2 207 THR 207 745 745 THR THR B . n B 2 208 LEU 208 746 746 LEU LEU B . n B 2 209 ASN 209 747 747 ASN ASN B . n B 2 210 ASP 210 748 748 ASP ASP B . n B 2 211 MET 211 749 749 MET MET B . n B 2 212 GLU 212 750 750 GLU GLU B . n B 2 213 SER 213 751 751 SER SER B . n B 2 214 VAL 214 752 752 VAL VAL B . n B 2 215 ASP 215 753 753 ASP ASP B . n B 2 216 SER 216 754 754 SER SER B . n B 2 217 GLU 217 755 755 GLU GLU B . n B 2 218 TYR 218 756 756 TYR TYR B . n B 2 219 TYR 219 757 757 TYR TYR B . n B 2 220 ASN 220 758 758 ASN ASN B . n B 2 221 SER 221 759 759 SER SER B . n B 2 222 LEU 222 760 760 LEU LEU B . n B 2 223 LYS 223 761 761 LYS LYS B . n B 2 224 TRP 224 762 762 TRP TRP B . n B 2 225 ILE 225 763 763 ILE ILE B . n B 2 226 LEU 226 764 764 LEU LEU B . n B 2 227 GLU 227 765 765 GLU GLU B . n B 2 228 ASN 228 766 766 ASN ASN B . n B 2 229 ASP 229 767 767 ASP ASP B . n B 2 230 PRO 230 768 768 PRO PRO B . n B 2 231 THR 231 769 769 THR THR B . n B 2 232 GLU 232 770 770 GLU GLU B . n B 2 233 LEU 233 771 771 LEU LEU B . n B 2 234 ASP 234 772 772 ASP ASP B . n B 2 235 LEU 235 773 773 LEU LEU B . n B 2 236 MET 236 774 774 MET MET B . n B 2 237 PHE 237 775 775 PHE PHE B . n B 2 238 CYS 238 776 776 CYS CYS B . n B 2 239 ILE 239 777 777 ILE ILE B . n B 2 240 ASP 240 778 778 ASP ASP B . n B 2 241 GLU 241 779 779 GLU GLU B . n B 2 242 GLU 242 780 780 GLU GLU B . n B 2 243 ASN 243 781 781 ASN ASN B . n B 2 244 PHE 244 782 782 PHE PHE B . n B 2 245 GLY 245 783 783 GLY GLY B . n B 2 246 GLN 246 784 784 GLN GLN B . n B 2 247 THR 247 785 785 THR THR B . n B 2 248 TYR 248 786 786 TYR TYR B . n B 2 249 GLN 249 787 787 GLN GLN B . n B 2 250 VAL 250 788 788 VAL VAL B . n B 2 251 ASP 251 789 789 ASP ASP B . n B 2 252 LEU 252 790 790 LEU LEU B . n B 2 253 LYS 253 791 791 LYS LYS B . n B 2 254 PRO 254 792 792 PRO PRO B . n B 2 255 ASN 255 793 793 ASN ASN B . n B 2 256 GLY 256 794 794 GLY GLY B . n B 2 257 SER 257 795 795 SER SER B . n B 2 258 GLU 258 796 796 GLU GLU B . n B 2 259 ILE 259 797 797 ILE ILE B . n B 2 260 MET 260 798 798 MET MET B . n B 2 261 VAL 261 799 799 VAL VAL B . n B 2 262 THR 262 800 800 THR THR B . n B 2 263 ASN 263 801 801 ASN ASN B . n B 2 264 GLU 264 802 802 GLU GLU B . n B 2 265 ASN 265 803 803 ASN ASN B . n B 2 266 LYS 266 804 804 LYS LYS B . n B 2 267 ARG 267 805 805 ARG ARG B . n B 2 268 GLU 268 806 806 GLU GLU B . n B 2 269 TYR 269 807 807 TYR TYR B . n B 2 270 ILE 270 808 808 ILE ILE B . n B 2 271 ASP 271 809 809 ASP ASP B . n B 2 272 LEU 272 810 810 LEU LEU B . n B 2 273 VAL 273 811 811 VAL VAL B . n B 2 274 ILE 274 812 812 ILE ILE B . n B 2 275 GLN 275 813 813 GLN GLN B . n B 2 276 TRP 276 814 814 TRP TRP B . n B 2 277 ARG 277 815 815 ARG ARG B . n B 2 278 PHE 278 816 816 PHE PHE B . n B 2 279 VAL 279 817 817 VAL VAL B . n B 2 280 ASN 280 818 818 ASN ASN B . n B 2 281 ARG 281 819 819 ARG ARG B . n B 2 282 VAL 282 820 820 VAL VAL B . n B 2 283 GLN 283 821 821 GLN GLN B . n B 2 284 LYS 284 822 822 LYS LYS B . n B 2 285 GLN 285 823 823 GLN GLN B . n B 2 286 MET 286 824 824 MET MET B . n B 2 287 ASN 287 825 825 ASN ASN B . n B 2 288 ALA 288 826 826 ALA ALA B . n B 2 289 PHE 289 827 827 PHE PHE B . n B 2 290 LEU 290 828 828 LEU LEU B . n B 2 291 GLU 291 829 829 GLU GLU B . n B 2 292 GLY 292 830 830 GLY GLY B . n B 2 293 PHE 293 831 831 PHE PHE B . n B 2 294 THR 294 832 832 THR THR B . n B 2 295 GLU 295 833 833 GLU GLU B . n B 2 296 LEU 296 834 834 LEU LEU B . n B 2 297 LEU 297 835 835 LEU LEU B . n B 2 298 PRO 298 836 836 PRO PRO B . n B 2 299 ILE 299 837 837 ILE ILE B . n B 2 300 ASP 300 838 838 ASP ASP B . n B 2 301 LEU 301 839 839 LEU LEU B . n B 2 302 ILE 302 840 840 ILE ILE B . n B 2 303 LYS 303 841 841 LYS LYS B . n B 2 304 ILE 304 842 842 ILE ILE B . n B 2 305 PHE 305 843 843 PHE PHE B . n B 2 306 ASP 306 844 844 ASP ASP B . n B 2 307 GLU 307 845 845 GLU GLU B . n B 2 308 ASN 308 846 846 ASN ASN B . n B 2 309 GLU 309 847 847 GLU GLU B . n B 2 310 LEU 310 848 848 LEU LEU B . n B 2 311 GLU 311 849 849 GLU GLU B . n B 2 312 LEU 312 850 850 LEU LEU B . n B 2 313 LEU 313 851 851 LEU LEU B . n B 2 314 MET 314 852 852 MET MET B . n B 2 315 CYS 315 853 853 CYS CYS B . n B 2 316 GLY 316 854 854 GLY GLY B . n B 2 317 LEU 317 855 855 LEU LEU B . n B 2 318 GLY 318 856 856 GLY GLY B . n B 2 319 ASP 319 857 857 ASP ASP B . n B 2 320 VAL 320 858 858 VAL VAL B . n B 2 321 ASP 321 859 859 ASP ASP B . n B 2 322 VAL 322 860 860 VAL VAL B . n B 2 323 ASN 323 861 861 ASN ASN B . n B 2 324 ASP 324 862 862 ASP ASP B . n B 2 325 TRP 325 863 863 TRP TRP B . n B 2 326 ARG 326 864 864 ARG ARG B . n B 2 327 GLN 327 865 865 GLN GLN B . n B 2 328 HIS 328 866 866 HIS HIS B . n B 2 329 SER 329 867 867 SER SER B . n B 2 330 ILE 330 868 868 ILE ILE B . n B 2 331 TYR 331 869 869 TYR TYR B . n B 2 332 LYS 332 870 870 LYS LYS B . n B 2 333 ASN 333 871 871 ASN ASN B . n B 2 334 GLY 334 872 872 GLY GLY B . n B 2 335 TYR 335 873 873 TYR TYR B . n B 2 336 CYS 336 874 874 CYS CYS B . n B 2 337 PRO 337 875 875 PRO PRO B . n B 2 338 ASN 338 876 876 ASN ASN B . n B 2 339 HIS 339 877 877 HIS HIS B . n B 2 340 PRO 340 878 878 PRO PRO B . n B 2 341 VAL 341 879 879 VAL VAL B . n B 2 342 ILE 342 880 880 ILE ILE B . n B 2 343 GLN 343 881 881 GLN GLN B . n B 2 344 TRP 344 882 882 TRP TRP B . n B 2 345 PHE 345 883 883 PHE PHE B . n B 2 346 TRP 346 884 884 TRP TRP B . n B 2 347 LYS 347 885 885 LYS LYS B . n B 2 348 ALA 348 886 886 ALA ALA B . n B 2 349 VAL 349 887 887 VAL VAL B . n B 2 350 LEU 350 888 888 LEU LEU B . n B 2 351 LEU 351 889 889 LEU LEU B . n B 2 352 MET 352 890 890 MET MET B . n B 2 353 ASP 353 891 891 ASP ASP B . n B 2 354 ALA 354 892 892 ALA ALA B . n B 2 355 GLU 355 893 893 GLU GLU B . n B 2 356 LYS 356 894 894 LYS LYS B . n B 2 357 ARG 357 895 895 ARG ARG B . n B 2 358 ILE 358 896 896 ILE ILE B . n B 2 359 ARG 359 897 897 ARG ARG B . n B 2 360 LEU 360 898 898 LEU LEU B . n B 2 361 LEU 361 899 899 LEU LEU B . n B 2 362 GLN 362 900 900 GLN GLN B . n B 2 363 PHE 363 901 901 PHE PHE B . n B 2 364 VAL 364 902 902 VAL VAL B . n B 2 365 THR 365 903 903 THR THR B . n B 2 366 GLY 366 904 904 GLY GLY B . n B 2 367 THR 367 905 905 THR THR B . n B 2 368 SER 368 906 906 SER SER B . n B 2 369 ARG 369 907 907 ARG ARG B . n B 2 370 VAL 370 908 908 VAL VAL B . n B 2 371 PRO 371 909 909 PRO PRO B . n B 2 372 MET 372 910 910 MET MET B . n B 2 373 ASN 373 911 911 ASN ASN B . n B 2 374 GLY 374 912 912 GLY GLY B . n B 2 375 PHE 375 913 913 PHE PHE B . n B 2 376 ALA 376 914 914 ALA ALA B . n B 2 377 GLU 377 915 915 GLU GLU B . n B 2 378 LEU 378 916 916 LEU LEU B . n B 2 379 TYR 379 917 917 TYR TYR B . n B 2 380 GLY 380 918 918 GLY GLY B . n B 2 381 SER 381 919 919 SER SER B . n B 2 382 ASN 382 920 920 ASN ASN B . n B 2 383 GLY 383 921 921 GLY GLY B . n B 2 384 PRO 384 922 922 PRO PRO B . n B 2 385 GLN 385 923 923 GLN GLN B . n B 2 386 LEU 386 924 924 LEU LEU B . n B 2 387 PHE 387 925 925 PHE PHE B . n B 2 388 THR 388 926 926 THR THR B . n B 2 389 ILE 389 927 927 ILE ILE B . n B 2 390 GLU 390 928 928 GLU GLU B . n B 2 391 GLN 391 929 929 GLN GLN B . n B 2 392 TRP 392 930 930 TRP TRP B . n B 2 393 GLY 393 931 931 GLY GLY B . n B 2 394 SER 394 932 932 SER SER B . n B 2 395 PRO 395 933 933 PRO PRO B . n B 2 396 GLU 396 934 934 GLU GLU B . n B 2 397 LYS 397 935 935 LYS LYS B . n B 2 398 LEU 398 936 936 LEU LEU B . n B 2 399 PRO 399 937 937 PRO PRO B . n B 2 400 ARG 400 938 938 ARG ARG B . n B 2 401 ALA 401 939 939 ALA ALA B . n B 2 402 HIS 402 940 940 HIS HIS B . n B 2 403 THR 403 941 941 THR THR B . n B 2 404 CYS 404 942 942 CYS CYS B . n B 2 405 PHE 405 943 943 PHE PHE B . n B 2 406 ASN 406 944 944 ASN ASN B . n B 2 407 ARG 407 945 945 ARG ARG B . n B 2 408 LEU 408 946 946 LEU LEU B . n B 2 409 ASP 409 947 947 ASP ASP B . n B 2 410 LEU 410 948 948 LEU LEU B . n B 2 411 PRO 411 949 949 PRO PRO B . n B 2 412 PRO 412 950 950 PRO PRO B . n B 2 413 TYR 413 951 951 TYR TYR B . n B 2 414 GLU 414 952 952 GLU GLU B . n B 2 415 THR 415 953 953 THR THR B . n B 2 416 PHE 416 954 954 PHE PHE B . n B 2 417 GLU 417 955 955 GLU GLU B . n B 2 418 ASP 418 956 956 ASP ASP B . n B 2 419 LEU 419 957 957 LEU LEU B . n B 2 420 ARG 420 958 958 ARG ARG B . n B 2 421 GLU 421 959 959 GLU GLU B . n B 2 422 LYS 422 960 960 LYS LYS B . n B 2 423 LEU 423 961 961 LEU LEU B . n B 2 424 LEU 424 962 962 LEU LEU B . n B 2 425 MET 425 963 963 MET MET B . n B 2 426 ALA 426 964 964 ALA ALA B . n B 2 427 VAL 427 965 965 VAL VAL B . n B 2 428 GLU 428 966 966 GLU GLU B . n B 2 429 ASN 429 967 967 ASN ASN B . n B 2 430 ALA 430 968 968 ALA ALA B . n B 2 431 GLN 431 969 ? ? ? B . n B 2 432 GLY 432 970 ? ? ? B . n B 2 433 PHE 433 971 ? ? ? B . n B 2 434 GLU 434 972 ? ? ? B . n B 2 435 GLY 435 973 ? ? ? B . n B 2 436 VAL 436 974 ? ? ? B . n B 2 437 ASP 437 975 ? ? ? B . n B 2 438 MET 438 976 ? ? ? B . n B 2 439 ASP 439 977 ? ? ? B . n B 2 440 TYR 440 978 ? ? ? B . n B 2 441 LYS 441 979 ? ? ? B . n B 2 442 ASP 442 980 ? ? ? B . n B 2 443 ASP 443 981 ? ? ? B . n B 2 444 ASP 444 982 ? ? ? B . n B 2 445 ASP 445 983 ? ? ? B . n B 2 446 LYS 446 984 ? ? ? B . n # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 9Z5Q _cell.details ? _cell.formula_units_Z ? _cell.length_a 1.00 _cell.length_a_esd ? _cell.length_b 1.00 _cell.length_b_esd ? _cell.length_c 1.00 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB ? _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 9Z5Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 9Z5Q _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean ? _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 9Z5Q _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 3.06 _refine.ls_d_res_low ? _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_R_free ? _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs ? _refine.ls_percent_reflns_R_free ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work ? _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.correlation_coeff_I_to_Fcsqd_work ? _refine.correlation_coeff_I_to_Fcsqd_free ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'REAL-SPACE (WEIGHTED MAP SUM AT ATOM CENTERS)' _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id ? _refine.overall_SU_B ? _refine.overall_SU_ML ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_Zscore _refine_ls_restr.pdbx_restraint_function 'ELECTRON MICROSCOPY' ? 0.003 ? 4549 ? f_bond_d ? ? ? 'ELECTRON MICROSCOPY' ? 0.503 ? 6158 ? f_angle_d ? ? ? 'ELECTRON MICROSCOPY' ? 6.535 ? 619 ? f_dihedral_angle_d ? ? ? 'ELECTRON MICROSCOPY' ? 0.038 ? 634 ? f_chiral_restr ? ? ? 'ELECTRON MICROSCOPY' ? 0.003 ? 800 ? f_plane_restr ? ? ? # _struct.entry_id 9Z5Q _struct.title 'HECT domain of NEDD4-2 complex with a targeted nanobody, nb.C11' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 9Z5Q _struct_keywords.text 'Ubiquitin, targeted protein degradation, E3 ligase, Nanobody, LIGASE' _struct_keywords.pdbx_keywords LIGASE # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 9Z5Q 9Z5Q ? 1 ? 1 2 UNP NED4L_HUMAN Q96PU5 ? 2 ;SLNPNDLGPLPPGWEERIHLDGRTFYIDHNSKITQWEDPRLQNPAITGPAVPYSREFKQKYDYFRKKLKKPADIPNRFEM KLHRNNIFEESYRRIMSVKRPDVLKARLWIEFESEKGLDYGGVAREWFFLLSKEMFNPYYGLFEYSATDNYTLQINPNSG LCNEDHLSYFTFIGRVAGLAVFHGKLLDGFFIRPFYKMMLGKQITLNDMESVDSEYYNSLKWILENDPTELDLMFCIDEE NFGQTYQVDLKPNGSEIMVTNENKREYIDLVIQWRFVNRVQKQMNAFLEGFTELLPIDLIKIFDENELELLMCGLGDVDV NDWRQHSIYKNGYCPNHPVIQWFWKAVLLMDAEKRIRLLQFVTGTSRVPMNGFAELYGSNGPQLFTIEQWGSPEKLPRAH TCFNRLDLPPYETFEDLREKLLMAVENAQGFEGVD ; 541 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 9Z5Q A 1 ? 162 ? 9Z5Q -30 ? 131 ? -30 131 2 2 9Z5Q B 3 ? 437 ? Q96PU5 541 ? 975 ? 541 975 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 2 9Z5Q SER B 1 ? UNP Q96PU5 ? ? 'expression tag' 539 1 2 9Z5Q TYR B 2 ? UNP Q96PU5 ? ? 'expression tag' 540 2 2 9Z5Q MET B 438 ? UNP Q96PU5 ? ? 'expression tag' 976 3 2 9Z5Q ASP B 439 ? UNP Q96PU5 ? ? 'expression tag' 977 4 2 9Z5Q TYR B 440 ? UNP Q96PU5 ? ? 'expression tag' 978 5 2 9Z5Q LYS B 441 ? UNP Q96PU5 ? ? 'expression tag' 979 6 2 9Z5Q ASP B 442 ? UNP Q96PU5 ? ? 'expression tag' 980 7 2 9Z5Q ASP B 443 ? UNP Q96PU5 ? ? 'expression tag' 981 8 2 9Z5Q ASP B 444 ? UNP Q96PU5 ? ? 'expression tag' 982 9 2 9Z5Q ASP B 445 ? UNP Q96PU5 ? ? 'expression tag' 983 10 2 9Z5Q LYS B 446 ? UNP Q96PU5 ? ? 'expression tag' 984 11 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'electron microscopy' _pdbx_struct_assembly_auth_evidence.details 'not applicable' # _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] 1.0 _pdbx_struct_oper_list.matrix[1][2] 0.0 _pdbx_struct_oper_list.matrix[1][3] 0.0 _pdbx_struct_oper_list.vector[1] 0.0 _pdbx_struct_oper_list.matrix[2][1] 0.0 _pdbx_struct_oper_list.matrix[2][2] 1.0 _pdbx_struct_oper_list.matrix[2][3] 0.0 _pdbx_struct_oper_list.vector[2] 0.0 _pdbx_struct_oper_list.matrix[3][1] 0.0 _pdbx_struct_oper_list.matrix[3][2] 0.0 _pdbx_struct_oper_list.matrix[3][3] 1.0 _pdbx_struct_oper_list.vector[3] 0.0 # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 AA1 LYS A 117 ? THR A 121 ? LYS A 86 THR A 90 5 ? 5 HELX_P HELX_P2 AA2 GLU B 58 ? LYS B 69 ? GLU B 596 LYS B 607 1 ? 12 HELX_P HELX_P3 AA3 HIS B 85 ? ASN B 87 ? HIS B 623 ASN B 625 5 ? 3 HELX_P HELX_P4 AA4 ASN B 88 ? SER B 99 ? ASN B 626 SER B 637 1 ? 12 HELX_P HELX_P5 AA5 ARG B 102 ? LYS B 107 ? ARG B 640 LYS B 645 1 ? 6 HELX_P HELX_P6 AA6 SER B 116 ? LYS B 118 ? SER B 654 LYS B 656 5 ? 3 HELX_P HELX_P7 AA7 GLY B 124 ? PHE B 138 ? GLY B 662 PHE B 676 1 ? 15 HELX_P HELX_P8 AA8 ASN B 139 ? GLY B 143 ? ASN B 677 GLY B 681 5 ? 5 HELX_P HELX_P9 AA9 ASN B 160 ? ASN B 165 ? ASN B 698 ASN B 703 1 ? 6 HELX_P HELX_P10 AB1 ASP B 167 ? GLY B 186 ? ASP B 705 GLY B 724 1 ? 20 HELX_P HELX_P11 AB2 ILE B 194 ? GLY B 203 ? ILE B 732 GLY B 741 1 ? 10 HELX_P HELX_P12 AB3 ASP B 210 ? ASP B 215 ? ASP B 748 ASP B 753 1 ? 6 HELX_P HELX_P13 AB4 ASP B 215 ? ASN B 228 ? ASP B 753 ASN B 766 1 ? 14 HELX_P HELX_P14 AB5 ASN B 265 ? PHE B 278 ? ASN B 803 PHE B 816 1 ? 14 HELX_P HELX_P15 AB6 PHE B 278 ? GLU B 295 ? PHE B 816 GLU B 833 1 ? 18 HELX_P HELX_P16 AB7 PRO B 298 ? LYS B 303 ? PRO B 836 LYS B 841 1 ? 6 HELX_P HELX_P17 AB8 ASP B 306 ? GLY B 316 ? ASP B 844 GLY B 854 1 ? 11 HELX_P HELX_P18 AB9 ASP B 321 ? HIS B 328 ? ASP B 859 HIS B 866 1 ? 8 HELX_P HELX_P19 AC1 HIS B 339 ? MET B 352 ? HIS B 877 MET B 890 1 ? 14 HELX_P HELX_P20 AC2 ASP B 353 ? THR B 365 ? ASP B 891 THR B 903 1 ? 13 HELX_P HELX_P21 AC3 THR B 415 ? ASN B 429 ? THR B 953 ASN B 967 1 ? 15 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_conn.id disulf1 _struct_conn.conn_type_id disulf _struct_conn.pdbx_leaving_atom_flag ? _struct_conn.pdbx_PDB_id ? _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 53 _struct_conn.ptnr1_label_atom_id SG _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 126 _struct_conn.ptnr2_label_atom_id SG _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 22 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 95 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.details ? _struct_conn.pdbx_dist_value 2.030 _struct_conn.pdbx_value_order ? _struct_conn.pdbx_role ? # _struct_conn_type.id disulf _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_modification_feature.ordinal 1 _pdbx_modification_feature.label_comp_id CYS _pdbx_modification_feature.label_asym_id A _pdbx_modification_feature.label_seq_id 53 _pdbx_modification_feature.label_alt_id ? _pdbx_modification_feature.modified_residue_label_comp_id CYS _pdbx_modification_feature.modified_residue_label_asym_id A _pdbx_modification_feature.modified_residue_label_seq_id 126 _pdbx_modification_feature.modified_residue_label_alt_id ? _pdbx_modification_feature.auth_comp_id CYS _pdbx_modification_feature.auth_asym_id A _pdbx_modification_feature.auth_seq_id 22 _pdbx_modification_feature.PDB_ins_code ? _pdbx_modification_feature.symmetry 1_555 _pdbx_modification_feature.modified_residue_auth_comp_id CYS _pdbx_modification_feature.modified_residue_auth_asym_id A _pdbx_modification_feature.modified_residue_auth_seq_id 95 _pdbx_modification_feature.modified_residue_PDB_ins_code ? _pdbx_modification_feature.modified_residue_symmetry 1_555 _pdbx_modification_feature.comp_id_linking_atom SG _pdbx_modification_feature.modified_residue_id_linking_atom SG _pdbx_modification_feature.modified_residue_id . _pdbx_modification_feature.ref_pcm_id . _pdbx_modification_feature.ref_comp_id . _pdbx_modification_feature.type None _pdbx_modification_feature.category 'Disulfide bridge' # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 4 ? AA2 ? 2 ? AA3 ? 5 ? AA4 ? 5 ? AA5 ? 3 ? AA6 ? 2 ? AA7 ? 2 ? AA8 ? 2 ? AA9 ? 4 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense AA1 1 2 ? anti-parallel AA1 2 3 ? anti-parallel AA1 3 4 ? anti-parallel AA2 1 2 ? parallel AA3 1 2 ? anti-parallel AA3 2 3 ? anti-parallel AA3 3 4 ? anti-parallel AA3 4 5 ? anti-parallel AA4 1 2 ? anti-parallel AA4 2 3 ? anti-parallel AA4 3 4 ? anti-parallel AA4 4 5 ? anti-parallel AA5 1 2 ? anti-parallel AA5 2 3 ? anti-parallel AA6 1 2 ? parallel AA7 1 2 ? anti-parallel AA8 1 2 ? anti-parallel AA9 1 2 ? parallel AA9 2 3 ? parallel AA9 3 4 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id AA1 1 VAL A 33 ? SER A 38 ? VAL A 2 SER A 7 AA1 2 LEU A 49 ? GLY A 57 ? LEU A 18 GLY A 26 AA1 3 THR A 108 ? MET A 113 ? THR A 77 MET A 82 AA1 4 PHE A 98 ? ASP A 103 ? PHE A 67 ASP A 72 AA2 1 VAL A 43 ? GLN A 44 ? VAL A 12 GLN A 13 AA2 2 VAL A 151 ? SER A 152 ? VAL A 120 SER A 121 AA3 1 TYR A 89 ? TYR A 90 ? TYR A 58 TYR A 59 AA3 2 ARG A 76 ? GLY A 81 ? ARG A 45 GLY A 50 AA3 3 VAL A 62 ? GLN A 70 ? VAL A 31 GLN A 39 AA3 4 VAL A 123 ? PHE A 133 ? VAL A 92 PHE A 102 AA3 5 PRO A 137 ? TRP A 143 ? PRO A 106 TRP A 112 AA4 1 TYR A 89 ? TYR A 90 ? TYR A 58 TYR A 59 AA4 2 ARG A 76 ? GLY A 81 ? ARG A 45 GLY A 50 AA4 3 VAL A 62 ? GLN A 70 ? VAL A 31 GLN A 39 AA4 4 VAL A 123 ? PHE A 133 ? VAL A 92 PHE A 102 AA4 5 THR A 147 ? GLN A 148 ? THR A 116 GLN A 117 AA5 1 TRP B 16 ? ILE B 20 ? TRP B 554 ILE B 558 AA5 2 THR B 26 ? ASP B 30 ? THR B 564 ASP B 568 AA5 3 ILE B 35 ? GLN B 37 ? ILE B 573 GLN B 575 AA6 1 ARG B 79 ? LEU B 84 ? ARG B 617 LEU B 622 AA6 2 ARG B 109 ? PHE B 114 ? ARG B 647 PHE B 652 AA7 1 PHE B 145 ? TYR B 147 ? PHE B 683 TYR B 685 AA7 2 LEU B 155 ? ILE B 157 ? LEU B 693 ILE B 695 AA8 1 CYS B 238 ? GLU B 241 ? CYS B 776 GLU B 779 AA8 2 TYR B 248 ? ASP B 251 ? TYR B 786 ASP B 789 AA9 1 SER B 329 ? LYS B 332 ? SER B 867 LYS B 870 AA9 2 PHE B 387 ? GLN B 391 ? PHE B 925 GLN B 929 AA9 3 ARG B 407 ? LEU B 410 ? ARG B 945 LEU B 948 AA9 4 ARG B 400 ? HIS B 402 ? ARG B 938 HIS B 940 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id AA1 1 2 N GLN A 34 ? N GLN A 3 O SER A 56 ? O SER A 25 AA1 2 3 N LEU A 49 ? N LEU A 18 O MET A 113 ? O MET A 82 AA1 3 4 O GLN A 112 ? O GLN A 81 N THR A 99 ? N THR A 68 AA2 1 2 N VAL A 43 ? N VAL A 12 O SER A 152 ? O SER A 121 AA3 1 2 O TYR A 89 ? O TYR A 58 N GLY A 81 ? N GLY A 50 AA3 2 3 O GLU A 77 ? O GLU A 46 N ARG A 69 ? N ARG A 38 AA3 3 4 N TRP A 63 ? N TRP A 32 O ILE A 129 ? O ILE A 98 AA3 4 5 N ARG A 132 ? N ARG A 101 O ARG A 138 ? O ARG A 107 AA4 1 2 O TYR A 89 ? O TYR A 58 N GLY A 81 ? N GLY A 50 AA4 2 3 O GLU A 77 ? O GLU A 46 N ARG A 69 ? N ARG A 38 AA4 3 4 N TRP A 63 ? N TRP A 32 O ILE A 129 ? O ILE A 98 AA4 4 5 N TYR A 124 ? N TYR A 93 O THR A 147 ? O THR A 116 AA5 1 2 N ARG B 19 ? N ARG B 557 O PHE B 27 ? O PHE B 565 AA5 2 3 N ASP B 30 ? N ASP B 568 O ILE B 35 ? O ILE B 573 AA6 1 2 N PHE B 80 ? N PHE B 618 O ARG B 109 ? O ARG B 647 AA7 1 2 N GLU B 146 ? N GLU B 684 O GLN B 156 ? O GLN B 694 AA8 1 2 N GLU B 241 ? N GLU B 779 O TYR B 248 ? O TYR B 786 AA9 1 2 N ILE B 330 ? N ILE B 868 O PHE B 387 ? O PHE B 925 AA9 2 3 N THR B 388 ? N THR B 926 O LEU B 408 ? O LEU B 946 AA9 3 4 O ARG B 407 ? O ARG B 945 N HIS B 402 ? N HIS B 940 # _pdbx_entry_details.entry_id 9Z5Q _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_ligand_of_interest ? _pdbx_entry_details.has_protein_modification Y # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 ALA A 52 ? ? 60.78 -136.68 2 1 ALA A 91 ? ? -32.81 171.10 3 1 SER A 104 ? ? 60.51 -114.17 4 1 ALA B 590 ? ? 56.63 -121.66 5 1 PHE B 782 ? ? 64.79 160.49 6 1 GLN B 784 ? ? 67.17 151.10 7 1 HIS B 866 ? ? -95.61 58.40 8 1 VAL B 902 ? ? -91.78 -60.82 # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 9Z5Q _em_3d_fitting.method ? _em_3d_fitting.target_criteria ? _em_3d_fitting.details 'The initial local fitting was done using UCSF Chimera and proceed to use real space fitting to complete the whole assembly in Coot' _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_space REAL _em_3d_fitting.ref_protocol 'AB INITIO MODEL' # loop_ _em_3d_fitting_list.id _em_3d_fitting_list.3d_fitting_id _em_3d_fitting_list.pdb_entry_id _em_3d_fitting_list.pdb_chain_id _em_3d_fitting_list.pdb_chain_residue_range _em_3d_fitting_list.details _em_3d_fitting_list.chain_id _em_3d_fitting_list.chain_residue_range _em_3d_fitting_list.source_name _em_3d_fitting_list.type _em_3d_fitting_list.accession_code _em_3d_fitting_list.initial_refinement_model_id 1 1 4BE8 B 596-975 ? B 596-975 PDB 'experimental model' 4BE8 1 2 1 2MPT B 541-595 ? B 541-595 PDB 'experimental model' 2MPT 2 3 1 . . . ColabFold ? ? Other other ? ? # _em_3d_reconstruction.entry_id 9Z5Q _em_3d_reconstruction.id 1 _em_3d_reconstruction.method ? _em_3d_reconstruction.algorithm 'BACK PROJECTION' _em_3d_reconstruction.citation_id ? _em_3d_reconstruction.details ? _em_3d_reconstruction.resolution 3.06 _em_3d_reconstruction.resolution_method 'FSC 0.143 CUT-OFF' _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.num_particles 90979 _em_3d_reconstruction.euler_angles_details ? _em_3d_reconstruction.num_class_averages 1 _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.symmetry_type POINT # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name ? _em_buffer.details '20 mM HEPES pH 7.5, 150 mM NaCl, 1 mM TCEP, and 1 mM EDTA, 0.043% CHAPS' _em_buffer.pH 7.5 # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.source RECOMBINANT _em_entity_assembly.type COMPLEX _em_entity_assembly.name 'HECT domain of NEDD4-2' _em_entity_assembly.details ? _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list '1, 2' # _em_imaging.entry_id 9Z5Q _em_imaging.id 1 _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.residual_tilt ? _em_imaging.microscope_model 'TFS KRIOS' _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model 'FEI TITAN KRIOS AUTOGRID HOLDER' _em_imaging.details 'Preliminary grid screening was performed manually' _em_imaging.date ? _em_imaging.accelerating_voltage 300 _em_imaging.illumination_mode 'SPOT SCAN' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs 2.7 _em_imaging.nominal_defocus_min 2500 _em_imaging.nominal_defocus_max 2500 _em_imaging.calibrated_defocus_min 1000 _em_imaging.calibrated_defocus_max ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_magnification 165000 _em_imaging.calibrated_magnification ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.citation_id ? _em_imaging.temperature ? _em_imaging.detector_distance ? _em_imaging.recording_temperature_minimum ? _em_imaging.recording_temperature_maximum ? _em_imaging.alignment_procedure 'COMA FREE' _em_imaging.c2_aperture_diameter 100 _em_imaging.specimen_id 1 _em_imaging.cryogen NITROGEN _em_imaging.objective_aperture ? _em_imaging.microscope_serial_number ? _em_imaging.microscope_version ? # _em_sample_support.id 1 _em_sample_support.film_material ? _em_sample_support.method ? _em_sample_support.grid_material GOLD _em_sample_support.grid_mesh_size 300 _em_sample_support.grid_type 'Quantifoil R0.6/1' _em_sample_support.details 'The grid was only glow discharged' _em_sample_support.specimen_id 1 _em_sample_support.citation_id ? # _em_vitrification.entry_id 9Z5Q _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity 100 _em_vitrification.temp ? _em_vitrification.chamber_temperature 277.15 _em_vitrification.instrument 'FEI VITROBOT MARK IV' _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.details 'Vitrification carried out at Argon atmosphere' # _em_experiment.entry_id 9Z5Q _em_experiment.id 1 _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.aggregation_state PARTICLE _em_experiment.entity_assembly_id 1 # _em_single_particle_entity.entry_id 9Z5Q _em_single_particle_entity.id 1 _em_single_particle_entity.image_processing_id 1 _em_single_particle_entity.point_symmetry C1 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A MET -30 ? A MET 1 2 1 Y 1 A LYS -29 ? A LYS 2 3 1 Y 1 A TYR -28 ? A TYR 3 4 1 Y 1 A LEU -27 ? A LEU 4 5 1 Y 1 A LEU -26 ? A LEU 5 6 1 Y 1 A PRO -25 ? A PRO 6 7 1 Y 1 A THR -24 ? A THR 7 8 1 Y 1 A ALA -23 ? A ALA 8 9 1 Y 1 A ALA -22 ? A ALA 9 10 1 Y 1 A ALA -21 ? A ALA 10 11 1 Y 1 A GLY -20 ? A GLY 11 12 1 Y 1 A LEU -19 ? A LEU 12 13 1 Y 1 A LEU -18 ? A LEU 13 14 1 Y 1 A LEU -17 ? A LEU 14 15 1 Y 1 A LEU -16 ? A LEU 15 16 1 Y 1 A ALA -15 ? A ALA 16 17 1 Y 1 A ALA -14 ? A ALA 17 18 1 Y 1 A GLN -13 ? A GLN 18 19 1 Y 1 A PRO -12 ? A PRO 19 20 1 Y 1 A ALA -11 ? A ALA 20 21 1 Y 1 A MET -10 ? A MET 21 22 1 Y 1 A ALA -9 ? A ALA 22 23 1 Y 1 A MET -8 ? A MET 23 24 1 Y 1 A ASP -7 ? A ASP 24 25 1 Y 1 A ILE -6 ? A ILE 25 26 1 Y 1 A GLY -5 ? A GLY 26 27 1 Y 1 A ILE -4 ? A ILE 27 28 1 Y 1 A ASN -3 ? A ASN 28 29 1 Y 1 A SER -2 ? A SER 29 30 1 Y 1 A ASP -1 ? A ASP 30 31 1 Y 1 A PRO 0 ? A PRO 31 32 1 Y 1 A PRO 123 ? A PRO 154 33 1 Y 1 A LEU 124 ? A LEU 155 34 1 Y 1 A GLU 125 ? A GLU 156 35 1 Y 1 A HIS 126 ? A HIS 157 36 1 Y 1 A HIS 127 ? A HIS 158 37 1 Y 1 A HIS 128 ? A HIS 159 38 1 Y 1 A HIS 129 ? A HIS 160 39 1 Y 1 A HIS 130 ? A HIS 161 40 1 Y 1 A HIS 131 ? A HIS 162 41 1 Y 1 B SER 539 ? B SER 1 42 1 Y 1 B TYR 540 ? B TYR 2 43 1 Y 1 B SER 541 ? B SER 3 44 1 Y 1 B LEU 542 ? B LEU 4 45 1 Y 1 B ASN 543 ? B ASN 5 46 1 Y 1 B PRO 544 ? B PRO 6 47 1 Y 1 B LEU 581 ? B LEU 43 48 1 Y 1 B GLN 582 ? B GLN 44 49 1 Y 1 B ASN 583 ? B ASN 45 50 1 Y 1 B PRO 584 ? B PRO 46 51 1 Y 1 B ALA 585 ? B ALA 47 52 1 Y 1 B ILE 586 ? B ILE 48 53 1 Y 1 B THR 587 ? B THR 49 54 1 Y 1 B GLN 969 ? B GLN 431 55 1 Y 1 B GLY 970 ? B GLY 432 56 1 Y 1 B PHE 971 ? B PHE 433 57 1 Y 1 B GLU 972 ? B GLU 434 58 1 Y 1 B GLY 973 ? B GLY 435 59 1 Y 1 B VAL 974 ? B VAL 436 60 1 Y 1 B ASP 975 ? B ASP 437 61 1 Y 1 B MET 976 ? B MET 438 62 1 Y 1 B ASP 977 ? B ASP 439 63 1 Y 1 B TYR 978 ? B TYR 440 64 1 Y 1 B LYS 979 ? B LYS 441 65 1 Y 1 B ASP 980 ? B ASP 442 66 1 Y 1 B ASP 981 ? B ASP 443 67 1 Y 1 B ASP 982 ? B ASP 444 68 1 Y 1 B ASP 983 ? B ASP 445 69 1 Y 1 B LYS 984 ? B LYS 446 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ARG N N N N 14 ARG CA C N S 15 ARG C C N N 16 ARG O O N N 17 ARG CB C N N 18 ARG CG C N N 19 ARG CD C N N 20 ARG NE N N N 21 ARG CZ C N N 22 ARG NH1 N N N 23 ARG NH2 N N N 24 ARG OXT O N N 25 ARG H H N N 26 ARG H2 H N N 27 ARG HA H N N 28 ARG HB2 H N N 29 ARG HB3 H N N 30 ARG HG2 H N N 31 ARG HG3 H N N 32 ARG HD2 H N N 33 ARG HD3 H N N 34 ARG HE H N N 35 ARG HH11 H N N 36 ARG HH12 H N N 37 ARG HH21 H N N 38 ARG HH22 H N N 39 ARG HXT H N N 40 ASN N N N N 41 ASN CA C N S 42 ASN C C N N 43 ASN O O N N 44 ASN CB C N N 45 ASN CG C N N 46 ASN OD1 O N N 47 ASN ND2 N N N 48 ASN OXT O N N 49 ASN H H N N 50 ASN H2 H N N 51 ASN HA H N N 52 ASN HB2 H N N 53 ASN HB3 H N N 54 ASN HD21 H N N 55 ASN HD22 H N N 56 ASN HXT H N N 57 ASP N N N N 58 ASP CA C N S 59 ASP C C N N 60 ASP O O N N 61 ASP CB C N N 62 ASP CG C N N 63 ASP OD1 O N N 64 ASP OD2 O N N 65 ASP OXT O N N 66 ASP H H N N 67 ASP H2 H N N 68 ASP HA H N N 69 ASP HB2 H N N 70 ASP HB3 H N N 71 ASP HD2 H N N 72 ASP HXT H N N 73 CYS N N N N 74 CYS CA C N R 75 CYS C C N N 76 CYS O O N N 77 CYS CB C N N 78 CYS SG S N N 79 CYS OXT O N N 80 CYS H H N N 81 CYS H2 H N N 82 CYS HA H N N 83 CYS HB2 H N N 84 CYS HB3 H N N 85 CYS HG H N N 86 CYS HXT H N N 87 GLN N N N N 88 GLN CA C N S 89 GLN C C N N 90 GLN O O N N 91 GLN CB C N N 92 GLN CG C N N 93 GLN CD C N N 94 GLN OE1 O N N 95 GLN NE2 N N N 96 GLN OXT O N N 97 GLN H H N N 98 GLN H2 H N N 99 GLN HA H N N 100 GLN HB2 H N N 101 GLN HB3 H N N 102 GLN HG2 H N N 103 GLN HG3 H N N 104 GLN HE21 H N N 105 GLN HE22 H N N 106 GLN HXT H N N 107 GLU N N N N 108 GLU CA C N S 109 GLU C C N N 110 GLU O O N N 111 GLU CB C N N 112 GLU CG C N N 113 GLU CD C N N 114 GLU OE1 O N N 115 GLU OE2 O N N 116 GLU OXT O N N 117 GLU H H N N 118 GLU H2 H N N 119 GLU HA H N N 120 GLU HB2 H N N 121 GLU HB3 H N N 122 GLU HG2 H N N 123 GLU HG3 H N N 124 GLU HE2 H N N 125 GLU HXT H N N 126 GLY N N N N 127 GLY CA C N N 128 GLY C C N N 129 GLY O O N N 130 GLY OXT O N N 131 GLY H H N N 132 GLY H2 H N N 133 GLY HA2 H N N 134 GLY HA3 H N N 135 GLY HXT H N N 136 HIS N N N N 137 HIS CA C N S 138 HIS C C N N 139 HIS O O N N 140 HIS CB C N N 141 HIS CG C Y N 142 HIS ND1 N Y N 143 HIS CD2 C Y N 144 HIS CE1 C Y N 145 HIS NE2 N Y N 146 HIS OXT O N N 147 HIS H H N N 148 HIS H2 H N N 149 HIS HA H N N 150 HIS HB2 H N N 151 HIS HB3 H N N 152 HIS HD1 H N N 153 HIS HD2 H N N 154 HIS HE1 H N N 155 HIS HE2 H N N 156 HIS HXT H N N 157 ILE N N N N 158 ILE CA C N S 159 ILE C C N N 160 ILE O O N N 161 ILE CB C N S 162 ILE CG1 C N N 163 ILE CG2 C N N 164 ILE CD1 C N N 165 ILE OXT O N N 166 ILE H H N N 167 ILE H2 H N N 168 ILE HA H N N 169 ILE HB H N N 170 ILE HG12 H N N 171 ILE HG13 H N N 172 ILE HG21 H N N 173 ILE HG22 H N N 174 ILE HG23 H N N 175 ILE HD11 H N N 176 ILE HD12 H N N 177 ILE HD13 H N N 178 ILE HXT H N N 179 LEU N N N N 180 LEU CA C N S 181 LEU C C N N 182 LEU O O N N 183 LEU CB C N N 184 LEU CG C N N 185 LEU CD1 C N N 186 LEU CD2 C N N 187 LEU OXT O N N 188 LEU H H N N 189 LEU H2 H N N 190 LEU HA H N N 191 LEU HB2 H N N 192 LEU HB3 H N N 193 LEU HG H N N 194 LEU HD11 H N N 195 LEU HD12 H N N 196 LEU HD13 H N N 197 LEU HD21 H N N 198 LEU HD22 H N N 199 LEU HD23 H N N 200 LEU HXT H N N 201 LYS N N N N 202 LYS CA C N S 203 LYS C C N N 204 LYS O O N N 205 LYS CB C N N 206 LYS CG C N N 207 LYS CD C N N 208 LYS CE C N N 209 LYS NZ N N N 210 LYS OXT O N N 211 LYS H H N N 212 LYS H2 H N N 213 LYS HA H N N 214 LYS HB2 H N N 215 LYS HB3 H N N 216 LYS HG2 H N N 217 LYS HG3 H N N 218 LYS HD2 H N N 219 LYS HD3 H N N 220 LYS HE2 H N N 221 LYS HE3 H N N 222 LYS HZ1 H N N 223 LYS HZ2 H N N 224 LYS HZ3 H N N 225 LYS HXT H N N 226 MET N N N N 227 MET CA C N S 228 MET C C N N 229 MET O O N N 230 MET CB C N N 231 MET CG C N N 232 MET SD S N N 233 MET CE C N N 234 MET OXT O N N 235 MET H H N N 236 MET H2 H N N 237 MET HA H N N 238 MET HB2 H N N 239 MET HB3 H N N 240 MET HG2 H N N 241 MET HG3 H N N 242 MET HE1 H N N 243 MET HE2 H N N 244 MET HE3 H N N 245 MET HXT H N N 246 PHE N N N N 247 PHE CA C N S 248 PHE C C N N 249 PHE O O N N 250 PHE CB C N N 251 PHE CG C Y N 252 PHE CD1 C Y N 253 PHE CD2 C Y N 254 PHE CE1 C Y N 255 PHE CE2 C Y N 256 PHE CZ C Y N 257 PHE OXT O N N 258 PHE H H N N 259 PHE H2 H N N 260 PHE HA H N N 261 PHE HB2 H N N 262 PHE HB3 H N N 263 PHE HD1 H N N 264 PHE HD2 H N N 265 PHE HE1 H N N 266 PHE HE2 H N N 267 PHE HZ H N N 268 PHE HXT H N N 269 PRO N N N N 270 PRO CA C N S 271 PRO C C N N 272 PRO O O N N 273 PRO CB C N N 274 PRO CG C N N 275 PRO CD C N N 276 PRO OXT O N N 277 PRO H H N N 278 PRO HA H N N 279 PRO HB2 H N N 280 PRO HB3 H N N 281 PRO HG2 H N N 282 PRO HG3 H N N 283 PRO HD2 H N N 284 PRO HD3 H N N 285 PRO HXT H N N 286 SER N N N N 287 SER CA C N S 288 SER C C N N 289 SER O O N N 290 SER CB C N N 291 SER OG O N N 292 SER OXT O N N 293 SER H H N N 294 SER H2 H N N 295 SER HA H N N 296 SER HB2 H N N 297 SER HB3 H N N 298 SER HG H N N 299 SER HXT H N N 300 THR N N N N 301 THR CA C N S 302 THR C C N N 303 THR O O N N 304 THR CB C N R 305 THR OG1 O N N 306 THR CG2 C N N 307 THR OXT O N N 308 THR H H N N 309 THR H2 H N N 310 THR HA H N N 311 THR HB H N N 312 THR HG1 H N N 313 THR HG21 H N N 314 THR HG22 H N N 315 THR HG23 H N N 316 THR HXT H N N 317 TRP N N N N 318 TRP CA C N S 319 TRP C C N N 320 TRP O O N N 321 TRP CB C N N 322 TRP CG C Y N 323 TRP CD1 C Y N 324 TRP CD2 C Y N 325 TRP NE1 N Y N 326 TRP CE2 C Y N 327 TRP CE3 C Y N 328 TRP CZ2 C Y N 329 TRP CZ3 C Y N 330 TRP CH2 C Y N 331 TRP OXT O N N 332 TRP H H N N 333 TRP H2 H N N 334 TRP HA H N N 335 TRP HB2 H N N 336 TRP HB3 H N N 337 TRP HD1 H N N 338 TRP HE1 H N N 339 TRP HE3 H N N 340 TRP HZ2 H N N 341 TRP HZ3 H N N 342 TRP HH2 H N N 343 TRP HXT H N N 344 TYR N N N N 345 TYR CA C N S 346 TYR C C N N 347 TYR O O N N 348 TYR CB C N N 349 TYR CG C Y N 350 TYR CD1 C Y N 351 TYR CD2 C Y N 352 TYR CE1 C Y N 353 TYR CE2 C Y N 354 TYR CZ C Y N 355 TYR OH O N N 356 TYR OXT O N N 357 TYR H H N N 358 TYR H2 H N N 359 TYR HA H N N 360 TYR HB2 H N N 361 TYR HB3 H N N 362 TYR HD1 H N N 363 TYR HD2 H N N 364 TYR HE1 H N N 365 TYR HE2 H N N 366 TYR HH H N N 367 TYR HXT H N N 368 VAL N N N N 369 VAL CA C N S 370 VAL C C N N 371 VAL O O N N 372 VAL CB C N N 373 VAL CG1 C N N 374 VAL CG2 C N N 375 VAL OXT O N N 376 VAL H H N N 377 VAL H2 H N N 378 VAL HA H N N 379 VAL HB H N N 380 VAL HG11 H N N 381 VAL HG12 H N N 382 VAL HG13 H N N 383 VAL HG21 H N N 384 VAL HG22 H N N 385 VAL HG23 H N N 386 VAL HXT H N N 387 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 ARG N CA sing N N 13 ARG N H sing N N 14 ARG N H2 sing N N 15 ARG CA C sing N N 16 ARG CA CB sing N N 17 ARG CA HA sing N N 18 ARG C O doub N N 19 ARG C OXT sing N N 20 ARG CB CG sing N N 21 ARG CB HB2 sing N N 22 ARG CB HB3 sing N N 23 ARG CG CD sing N N 24 ARG CG HG2 sing N N 25 ARG CG HG3 sing N N 26 ARG CD NE sing N N 27 ARG CD HD2 sing N N 28 ARG CD HD3 sing N N 29 ARG NE CZ sing N N 30 ARG NE HE sing N N 31 ARG CZ NH1 sing N N 32 ARG CZ NH2 doub N N 33 ARG NH1 HH11 sing N N 34 ARG NH1 HH12 sing N N 35 ARG NH2 HH21 sing N N 36 ARG NH2 HH22 sing N N 37 ARG OXT HXT sing N N 38 ASN N CA sing N N 39 ASN N H sing N N 40 ASN N H2 sing N N 41 ASN CA C sing N N 42 ASN CA CB sing N N 43 ASN CA HA sing N N 44 ASN C O doub N N 45 ASN C OXT sing N N 46 ASN CB CG sing N N 47 ASN CB HB2 sing N N 48 ASN CB HB3 sing N N 49 ASN CG OD1 doub N N 50 ASN CG ND2 sing N N 51 ASN ND2 HD21 sing N N 52 ASN ND2 HD22 sing N N 53 ASN OXT HXT sing N N 54 ASP N CA sing N N 55 ASP N H sing N N 56 ASP N H2 sing N N 57 ASP CA C sing N N 58 ASP CA CB sing N N 59 ASP CA HA sing N N 60 ASP C O doub N N 61 ASP C OXT sing N N 62 ASP CB CG sing N N 63 ASP CB HB2 sing N N 64 ASP CB HB3 sing N N 65 ASP CG OD1 doub N N 66 ASP CG OD2 sing N N 67 ASP OD2 HD2 sing N N 68 ASP OXT HXT sing N N 69 CYS N CA sing N N 70 CYS N H sing N N 71 CYS N H2 sing N N 72 CYS CA C sing N N 73 CYS CA CB sing N N 74 CYS CA HA sing N N 75 CYS C O doub N N 76 CYS C OXT sing N N 77 CYS CB SG sing N N 78 CYS CB HB2 sing N N 79 CYS CB HB3 sing N N 80 CYS SG HG sing N N 81 CYS OXT HXT sing N N 82 GLN N CA sing N N 83 GLN N H sing N N 84 GLN N H2 sing N N 85 GLN CA C sing N N 86 GLN CA CB sing N N 87 GLN CA HA sing N N 88 GLN C O doub N N 89 GLN C OXT sing N N 90 GLN CB CG sing N N 91 GLN CB HB2 sing N N 92 GLN CB HB3 sing N N 93 GLN CG CD sing N N 94 GLN CG HG2 sing N N 95 GLN CG HG3 sing N N 96 GLN CD OE1 doub N N 97 GLN CD NE2 sing N N 98 GLN NE2 HE21 sing N N 99 GLN NE2 HE22 sing N N 100 GLN OXT HXT sing N N 101 GLU N CA sing N N 102 GLU N H sing N N 103 GLU N H2 sing N N 104 GLU CA C sing N N 105 GLU CA CB sing N N 106 GLU CA HA sing N N 107 GLU C O doub N N 108 GLU C OXT sing N N 109 GLU CB CG sing N N 110 GLU CB HB2 sing N N 111 GLU CB HB3 sing N N 112 GLU CG CD sing N N 113 GLU CG HG2 sing N N 114 GLU CG HG3 sing N N 115 GLU CD OE1 doub N N 116 GLU CD OE2 sing N N 117 GLU OE2 HE2 sing N N 118 GLU OXT HXT sing N N 119 GLY N CA sing N N 120 GLY N H sing N N 121 GLY N H2 sing N N 122 GLY CA C sing N N 123 GLY CA HA2 sing N N 124 GLY CA HA3 sing N N 125 GLY C O doub N N 126 GLY C OXT sing N N 127 GLY OXT HXT sing N N 128 HIS N CA sing N N 129 HIS N H sing N N 130 HIS N H2 sing N N 131 HIS CA C sing N N 132 HIS CA CB sing N N 133 HIS CA HA sing N N 134 HIS C O doub N N 135 HIS C OXT sing N N 136 HIS CB CG sing N N 137 HIS CB HB2 sing N N 138 HIS CB HB3 sing N N 139 HIS CG ND1 sing Y N 140 HIS CG CD2 doub Y N 141 HIS ND1 CE1 doub Y N 142 HIS ND1 HD1 sing N N 143 HIS CD2 NE2 sing Y N 144 HIS CD2 HD2 sing N N 145 HIS CE1 NE2 sing Y N 146 HIS CE1 HE1 sing N N 147 HIS NE2 HE2 sing N N 148 HIS OXT HXT sing N N 149 ILE N CA sing N N 150 ILE N H sing N N 151 ILE N H2 sing N N 152 ILE CA C sing N N 153 ILE CA CB sing N N 154 ILE CA HA sing N N 155 ILE C O doub N N 156 ILE C OXT sing N N 157 ILE CB CG1 sing N N 158 ILE CB CG2 sing N N 159 ILE CB HB sing N N 160 ILE CG1 CD1 sing N N 161 ILE CG1 HG12 sing N N 162 ILE CG1 HG13 sing N N 163 ILE CG2 HG21 sing N N 164 ILE CG2 HG22 sing N N 165 ILE CG2 HG23 sing N N 166 ILE CD1 HD11 sing N N 167 ILE CD1 HD12 sing N N 168 ILE CD1 HD13 sing N N 169 ILE OXT HXT sing N N 170 LEU N CA sing N N 171 LEU N H sing N N 172 LEU N H2 sing N N 173 LEU CA C sing N N 174 LEU CA CB sing N N 175 LEU CA HA sing N N 176 LEU C O doub N N 177 LEU C OXT sing N N 178 LEU CB CG sing N N 179 LEU CB HB2 sing N N 180 LEU CB HB3 sing N N 181 LEU CG CD1 sing N N 182 LEU CG CD2 sing N N 183 LEU CG HG sing N N 184 LEU CD1 HD11 sing N N 185 LEU CD1 HD12 sing N N 186 LEU CD1 HD13 sing N N 187 LEU CD2 HD21 sing N N 188 LEU CD2 HD22 sing N N 189 LEU CD2 HD23 sing N N 190 LEU OXT HXT sing N N 191 LYS N CA sing N N 192 LYS N H sing N N 193 LYS N H2 sing N N 194 LYS CA C sing N N 195 LYS CA CB sing N N 196 LYS CA HA sing N N 197 LYS C O doub N N 198 LYS C OXT sing N N 199 LYS CB CG sing N N 200 LYS CB HB2 sing N N 201 LYS CB HB3 sing N N 202 LYS CG CD sing N N 203 LYS CG HG2 sing N N 204 LYS CG HG3 sing N N 205 LYS CD CE sing N N 206 LYS CD HD2 sing N N 207 LYS CD HD3 sing N N 208 LYS CE NZ sing N N 209 LYS CE HE2 sing N N 210 LYS CE HE3 sing N N 211 LYS NZ HZ1 sing N N 212 LYS NZ HZ2 sing N N 213 LYS NZ HZ3 sing N N 214 LYS OXT HXT sing N N 215 MET N CA sing N N 216 MET N H sing N N 217 MET N H2 sing N N 218 MET CA C sing N N 219 MET CA CB sing N N 220 MET CA HA sing N N 221 MET C O doub N N 222 MET C OXT sing N N 223 MET CB CG sing N N 224 MET CB HB2 sing N N 225 MET CB HB3 sing N N 226 MET CG SD sing N N 227 MET CG HG2 sing N N 228 MET CG HG3 sing N N 229 MET SD CE sing N N 230 MET CE HE1 sing N N 231 MET CE HE2 sing N N 232 MET CE HE3 sing N N 233 MET OXT HXT sing N N 234 PHE N CA sing N N 235 PHE N H sing N N 236 PHE N H2 sing N N 237 PHE CA C sing N N 238 PHE CA CB sing N N 239 PHE CA HA sing N N 240 PHE C O doub N N 241 PHE C OXT sing N N 242 PHE CB CG sing N N 243 PHE CB HB2 sing N N 244 PHE CB HB3 sing N N 245 PHE CG CD1 doub Y N 246 PHE CG CD2 sing Y N 247 PHE CD1 CE1 sing Y N 248 PHE CD1 HD1 sing N N 249 PHE CD2 CE2 doub Y N 250 PHE CD2 HD2 sing N N 251 PHE CE1 CZ doub Y N 252 PHE CE1 HE1 sing N N 253 PHE CE2 CZ sing Y N 254 PHE CE2 HE2 sing N N 255 PHE CZ HZ sing N N 256 PHE OXT HXT sing N N 257 PRO N CA sing N N 258 PRO N CD sing N N 259 PRO N H sing N N 260 PRO CA C sing N N 261 PRO CA CB sing N N 262 PRO CA HA sing N N 263 PRO C O doub N N 264 PRO C OXT sing N N 265 PRO CB CG sing N N 266 PRO CB HB2 sing N N 267 PRO CB HB3 sing N N 268 PRO CG CD sing N N 269 PRO CG HG2 sing N N 270 PRO CG HG3 sing N N 271 PRO CD HD2 sing N N 272 PRO CD HD3 sing N N 273 PRO OXT HXT sing N N 274 SER N CA sing N N 275 SER N H sing N N 276 SER N H2 sing N N 277 SER CA C sing N N 278 SER CA CB sing N N 279 SER CA HA sing N N 280 SER C O doub N N 281 SER C OXT sing N N 282 SER CB OG sing N N 283 SER CB HB2 sing N N 284 SER CB HB3 sing N N 285 SER OG HG sing N N 286 SER OXT HXT sing N N 287 THR N CA sing N N 288 THR N H sing N N 289 THR N H2 sing N N 290 THR CA C sing N N 291 THR CA CB sing N N 292 THR CA HA sing N N 293 THR C O doub N N 294 THR C OXT sing N N 295 THR CB OG1 sing N N 296 THR CB CG2 sing N N 297 THR CB HB sing N N 298 THR OG1 HG1 sing N N 299 THR CG2 HG21 sing N N 300 THR CG2 HG22 sing N N 301 THR CG2 HG23 sing N N 302 THR OXT HXT sing N N 303 TRP N CA sing N N 304 TRP N H sing N N 305 TRP N H2 sing N N 306 TRP CA C sing N N 307 TRP CA CB sing N N 308 TRP CA HA sing N N 309 TRP C O doub N N 310 TRP C OXT sing N N 311 TRP CB CG sing N N 312 TRP CB HB2 sing N N 313 TRP CB HB3 sing N N 314 TRP CG CD1 doub Y N 315 TRP CG CD2 sing Y N 316 TRP CD1 NE1 sing Y N 317 TRP CD1 HD1 sing N N 318 TRP CD2 CE2 doub Y N 319 TRP CD2 CE3 sing Y N 320 TRP NE1 CE2 sing Y N 321 TRP NE1 HE1 sing N N 322 TRP CE2 CZ2 sing Y N 323 TRP CE3 CZ3 doub Y N 324 TRP CE3 HE3 sing N N 325 TRP CZ2 CH2 doub Y N 326 TRP CZ2 HZ2 sing N N 327 TRP CZ3 CH2 sing Y N 328 TRP CZ3 HZ3 sing N N 329 TRP CH2 HH2 sing N N 330 TRP OXT HXT sing N N 331 TYR N CA sing N N 332 TYR N H sing N N 333 TYR N H2 sing N N 334 TYR CA C sing N N 335 TYR CA CB sing N N 336 TYR CA HA sing N N 337 TYR C O doub N N 338 TYR C OXT sing N N 339 TYR CB CG sing N N 340 TYR CB HB2 sing N N 341 TYR CB HB3 sing N N 342 TYR CG CD1 doub Y N 343 TYR CG CD2 sing Y N 344 TYR CD1 CE1 sing Y N 345 TYR CD1 HD1 sing N N 346 TYR CD2 CE2 doub Y N 347 TYR CD2 HD2 sing N N 348 TYR CE1 CZ doub Y N 349 TYR CE1 HE1 sing N N 350 TYR CE2 CZ sing Y N 351 TYR CE2 HE2 sing N N 352 TYR CZ OH sing N N 353 TYR OH HH sing N N 354 TYR OXT HXT sing N N 355 VAL N CA sing N N 356 VAL N H sing N N 357 VAL N H2 sing N N 358 VAL CA C sing N N 359 VAL CA CB sing N N 360 VAL CA HA sing N N 361 VAL C O doub N N 362 VAL C OXT sing N N 363 VAL CB CG1 sing N N 364 VAL CB CG2 sing N N 365 VAL CB HB sing N N 366 VAL CG1 HG11 sing N N 367 VAL CG1 HG12 sing N N 368 VAL CG1 HG13 sing N N 369 VAL CG2 HG21 sing N N 370 VAL CG2 HG22 sing N N 371 VAL CG2 HG23 sing N N 372 VAL OXT HXT sing N N 373 # _em_admin.current_status REL _em_admin.deposition_date 2025-11-12 _em_admin.deposition_site RCSB _em_admin.entry_id 9Z5Q _em_admin.last_update 2026-01-28 _em_admin.map_release_date 2025-12-17 _em_admin.title 'HECT domain of NEDD4-2 complex with a targeted nanobody, nb.C11' # loop_ _em_buffer_component.buffer_id _em_buffer_component.concentration _em_buffer_component.concentration_units _em_buffer_component.formula _em_buffer_component.id _em_buffer_component.name 1 20 mM ? 1 '4- (2-hydroxyethyl)-1-piperazineethanesulfonic acid' 1 150 mM NaCl 2 'Sodium Chloride' 1 1 mM ? 3 'Tris (2-carboxyethyl)phosphine' 1 1 mM ? 4 'Ethylenediaminetetraacetic acid' 1 0.043 % ? 5 '3-((3-cholamidopropyl) dimethylammonio)-1-propanesulfonate' # _em_ctf_correction.details 'We generated ab initio reconstruction model in CryoSPARC and use it in our pipeline' _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.id 1 _em_ctf_correction.type NONE # _em_entity_assembly_molwt.entity_assembly_id 1 _em_entity_assembly_molwt.experimental_flag NO _em_entity_assembly_molwt.id 1 _em_entity_assembly_molwt.units MEGADALTONS _em_entity_assembly_molwt.value 0.07 # _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.id 2 _em_entity_assembly_naturalsource.ncbi_tax_id 9606 _em_entity_assembly_naturalsource.organism 'Homo sapiens' _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? _em_entity_assembly_naturalsource.details ? # _em_entity_assembly_recombinant.cell ? _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.ncbi_tax_id 562 _em_entity_assembly_recombinant.organism 'Escherichia coli' _em_entity_assembly_recombinant.plasmid pET24 _em_entity_assembly_recombinant.strain ? # _em_image_processing.details ? _em_image_processing.id 1 _em_image_processing.image_recording_id 1 # _em_image_recording.average_exposure_time ? _em_image_recording.avg_electron_dose_per_subtomogram ? _em_image_recording.avg_electron_dose_per_image 1.092 _em_image_recording.details 'Images were collected in movie-mode at 100 frames per second' _em_image_recording.detector_mode COUNTING _em_image_recording.film_or_detector_model 'GATAN K3 BIOQUANTUM (6k x 4k)' _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged 1 _em_image_recording.num_real_images 7790 # _em_imaging_optics.chr_aberration_corrector ? _em_imaging_optics.energyfilter_lower ? _em_imaging_optics.energyfilter_slit_width 20 _em_imaging_optics.energyfilter_name 'GIF Bioquantum' _em_imaging_optics.energyfilter_upper ? _em_imaging_optics.id 1 _em_imaging_optics.imaging_id 1 _em_imaging_optics.phase_plate ? _em_imaging_optics.sph_aberration_corrector ? _em_imaging_optics.details ? # _em_particle_selection.details ? _em_particle_selection.id 1 _em_particle_selection.image_processing_id 1 _em_particle_selection.method ? _em_particle_selection.num_particles_selected 1631714 _em_particle_selection.reference_model ? # loop_ _em_software.category _em_software.details _em_software.id _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id _em_software.name _em_software.version _em_software.reference_DOI 'PARTICLE SELECTION' ? 1 1 ? ? Topaz 0.26a ? 'IMAGE ACQUISITION' ? 2 ? ? 1 Leginon ? ? MASKING ? 3 ? ? ? ? ? ? 'CTF CORRECTION' ? 4 1 ? ? cryoSPARC ? ? 'LAYERLINE INDEXING' ? 5 ? ? ? ? ? ? 'DIFFRACTION INDEXING' ? 6 ? ? ? ? ? ? 'MODEL FITTING' ? 7 ? 1 ? 'UCSF ChimeraX' 'version 1.9.dev202409060131 (2024-09-06)' ? 'MODEL FITTING' ? 8 ? 1 ? Coot 0.9.6.EL ? OTHER ? 9 ? ? ? ? ? ? 'MODEL REFINEMENT' ? 10 ? 1 ? PHENIX v1.21-5207 ? 'INITIAL EULER ASSIGNMENT' ? 11 1 ? ? ? ? ? 'FINAL EULER ASSIGNMENT' ? 12 1 ? ? ? ? ? CLASSIFICATION ? 13 1 ? ? ? ? ? RECONSTRUCTION ? 14 1 ? ? cryoSPARC v4.4 ? # _em_specimen.concentration 11 _em_specimen.details 'The sample was monodisperse and of high purifty' _em_specimen.embedding_applied NO _em_specimen.experiment_id 1 _em_specimen.id 1 _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied YES # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)' 'United States' RO1-HL121253 1 'National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)' 'United States' RO1-HL142111 2 'National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)' 'United States' R01-NS126850 3 'National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)' 'United States' P01-HL164319 4 'American Heart Association' 'United States' 20PRE35210815 5 'National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)' 'United States' 'F31 DK118866' 6 'American Heart Association' 'United States' POST1019343 7 # loop_ _pdbx_initial_refinement_model.id _pdbx_initial_refinement_model.type _pdbx_initial_refinement_model.source_name _pdbx_initial_refinement_model.accession_code 1 'experimental model' PDB 4BE8 2 'experimental model' PDB 2MPT 3 other Other ? # _atom_sites.entry_id 9Z5Q _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C H N O S # loop_ #