Ubiquitin D (UBD) is a 165-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: O15205.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 85.0 (confident 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 | 39% |
| 70 to 90 | Confident: backbone generally right | 49% |
| 50 to 70 | Low: treat with caution | 9% |
| Below 50 | Very low: often disordered regions | 3% |
What pLDDT means and how to read it
Ubiquitin-like protein modifier which can be covalently attached to target proteins and subsequently leads to their degradation by the 26S proteasome, in a NUB1-dependent manner (PubMed:15831455, PubMed:16707496, PubMed:19166848). Conjugation to the target protein is activated by UBA6 via adenylation of its C-terminal glycine (PubMed:17889673, PubMed:35970836). Promotes the expression of the proteasome subunit beta type-9 (PSMB9/LMP2). Regulates TNF-induced and LPS-mediated activation of the central mediator of innate immunity NF-kappa-B by promoting TNF-mediated proteasomal degradation of ubiquitinated-I-kappa-B-alpha (PubMed:19959714). Required for TNF-induced p65 nuclear translocation…
Interacts directly with the 26S proteasome (PubMed:16707496). Interacts with NUB1; this interaction facilitates the linking of UBD-conjugated target protein to the proteasome complex and accelerates its own degradation and that of its conjugates (PubMed:14757770, PubMed:16707496, PubMed:25422469). Interacts (via ubiquitin-like 1 domain) with the spindle checkpoint protein MAD2L1 during mitosis…
Nucleus, Cytoplasm
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 6GF1 | X-ray | 1.93 Å | A/B/C=10-86 |
| 9E8O | EM | 3.1 Å | g=1-165 |
| 7PYV | X-ray | 3.27 Å | C=7-165 |
| 2MBE | NMR | A=8-82 | |
| 6GF2 | NMR | A=85-165 |
MolViewer loads the AlphaFold model straight from AlphaFold DB into your browser. Show it as a cartoon, color by pLDDT, measure distances and angles, and load a PDB structure next to it to compare.