Ubiquitin-like protein NEDD8 (NEDD8) is a 81-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q15843.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 89.9 (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 | 85% |
| 70 to 90 | Confident: backbone generally right | 5% |
| 50 to 70 | Low: treat with caution | 4% |
| Below 50 | Very low: often disordered regions | 6% |
What pLDDT means and how to read it
Ubiquitin-like protein which plays an important role in cell cycle control and embryogenesis via its conjugation to a limited number of cellular proteins, such as cullins or p53/TP53 (PubMed:10318914, PubMed:10597293, PubMed:11953428, PubMed:14690597, PubMed:15242646, PubMed:9694792, PubMed:38605244, PubMed:38316879). Attachment of NEDD8 to cullins is critical for the recruitment of E2 to the cullin-RING-based E3 ubiquitin-protein ligase complex, thus facilitating polyubiquitination and proteasomal degradation of cyclins and other regulatory proteins (PubMed:10318914, PubMed:10597293, PubMed:11953428, PubMed:20688984, PubMed:9694792, PubMed:38605244, PubMed:38316879). Attachment of NEDD8…
Interacts with AHR; interaction is direct (PubMed:12215427). Interacts with NUB1; interaction is direct (PubMed:11259415). Interacts with ESR1 (By similarity)
Nucleus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 1NDD | X-ray | 1.6 Å | A/B/C/D=1-76 |
| 4FBJ | X-ray | 1.6 Å | B=1-81 |
| 8WZN | X-ray | 1.8 Å | B=1-76 |
| 2BKR | X-ray | 1.9 Å | B=1-76 |
| 4F8C | X-ray | 1.95 Å | B/D=1-81 |
| 1XT9 | X-ray | 2.2 Å | B=1-76 |
| 8WZO | X-ray | 2.25 Å | B=1-76 |
| 4HCP | X-ray | 2.52 Å | B=1-76 |
| 8CAF | X-ray | 2.66 Å | F/G=1-76 |
| 2NVU | X-ray | 2.8 Å | I/J=1-76 |
| 3DBH | X-ray | 2.85 Å | I/J/K/L=1-76 |
| 3DBL | X-ray | 2.9 Å | I/J/K/L=1-76 |
| 9EFQ | EM | 2.96 Å | I=1-81 |
| 9SDX | EM | 2.97 Å | N=1-81 |
| 1R4M | X-ray | 3.0 Å | I/J/K/L=1-76 |
| 3DQV | X-ray | 3.0 Å | A/B=1-76 |
| 3GZN | X-ray | 3.0 Å | I/J=1-76 |
| 9EFV | EM | 3.03 Å | I=1-81 |
| 3DBR | X-ray | 3.05 Å | I/J/K/L=1-76 |
| 4P5O | X-ray | 3.11 Å | H/K=1-76 |
Showing 20 of 43 experimental structures (best resolution first).
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.