Ubiquitin-associated protein 1 (UBAP1) is a 502-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9NZ09.
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The mean pLDDT of this model is 62.5 (low overall). pLDDT is AlphaFold's per-residue confidence score from 0 to 100. In MolViewer, choose the B-factor color scheme to color the model by pLDDT, because AlphaFold stores it in the B-factor column.
| pLDDT band | Meaning | Share of residues |
|---|---|---|
| Above 90 | Very high: backbone and side chains are usually accurate | 19% |
| 70 to 90 | Confident: backbone generally right | 22% |
| 50 to 70 | Low: treat with caution | 17% |
| Below 50 | Very low: often disordered regions | 43% |
What pLDDT means and how to read it
Component of the ESCRT-I complex, a regulator of vesicular trafficking process (PubMed:21757351, PubMed:22405001, PubMed:31203368). Binds to ubiquitinated cargo proteins and is required for the sorting of endocytic ubiquitinated cargos into multivesicular bodies (MVBs) (PubMed:21757351, PubMed:22405001). Plays a role in the proteasomal degradation of ubiquitinated cell-surface proteins, such as EGFR and BST2 (PubMed:22405001, PubMed:24284069, PubMed:31203368)
Component of an ESCRT-I complex (endosomal sorting complex required for transport I) which consists of TSG101, VPS28, VPS37A and UBAP1 in a 1:1:1:1 stoichiometry (Probable) (PubMed:21757351, PubMed:22405001, PubMed:24284069, PubMed:31203368). Interacts with PTPN23 (PubMed:21757351, PubMed:27839950). Interacts (via UBA domains) with ubiquitinated proteins (PubMed:22405001, PubMed:30929741)
Cytoplasm, cytosol, Endosome
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 4AE4 | X-ray | 1.65 Å | A/B=389-502 |
| 5LM1 | X-ray | 2.55 Å | B=261-280 |
| 1WGN | NMR | A=381-430 |
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