Replicase polyprotein 1ab (rep) is a 53-residue protein from Equine arteritis virus. This is its AlphaFold structure prediction, created 3 Jul 2025. UniProt accession: P19811.
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The mean pLDDT of this model is 94.4 (very high 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 | 91% |
| 70 to 90 | Confident: backbone generally right | 7% |
| 50 to 70 | Low: treat with caution | 2% |
| Below 50 | Very low: often disordered regions | 0% |
What pLDDT means and how to read it
The replicase polyprotein 1ab is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products
Nsp1 interacts with cellular transcription cofactor SND1/p100
Host nucleus, Host cytoplasm, Host membrane, Host cytoplasm, host perinuclear region
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 4IUM | X-ray | 1.45 Å | A=261-392 |
| 1MBM | X-ray | 2.0 Å | A/B/C/D=1071-1268 |
| 4N0N | X-ray | 2.0 Å | A=2371-2772 |
| 4N0O | X-ray | 2.65 Å | A/C/E/G=2371-2772 |
| 5HBZ | X-ray | 3.1 Å | A/B/C/D/E/F=2838-3056 |
| 5HC1 | X-ray | 3.1 Å | A/B/C/D=2838-3056 |
| 5F17 | X-ray | 3.2 Å | A/B/C/D/E/F=2838-3056 |
| 2L8K | NMR | A=1454-1575 |
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