Papain is a 345-residue protein from Carica papaya. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P00784.
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The mean pLDDT of this model is 90.3 (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 | 84% |
| 70 to 90 | Confident: backbone generally right | 2% |
| 50 to 70 | Low: treat with caution | 7% |
| Below 50 | Very low: often disordered regions | 7% |
What pLDDT means and how to read it
Cysteine proteinase with a high level of diversity in substrate specificity, an amino acid bearing a large hydrophobic side chain at the P2 position is preferred
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 9CKW | X-ray | 1.4 Å | A=134-345 |
| 9CKY | X-ray | 1.4 Å | A=134-345 |
| 2CIO | X-ray | 1.5 Å | A=134-345 |
| 9CKT | X-ray | 1.5 Å | A=134-345 |
| 9EG7 | X-ray | 1.5 Å | A=134-345 |
| 9NB2 | X-ray | 1.5 Å | A=134-345 |
| 1KHQ | X-ray | 1.6 Å | A=134-345 |
| 1PPN | X-ray | 1.6 Å | A=134-345 |
| 9CLH | X-ray | 1.6 Å | A=134-345 |
| 9NAT | X-ray | 1.6 Å | A=134-345 |
| 6TCX | X-ray | 1.65 Å | AAA=134-345 |
| 9PAP | X-ray | 1.65 Å | A=134-345 |
| 1CVZ | X-ray | 1.7 Å | A=134-345 |
| 1PIP | X-ray | 1.7 Å | A=134-345 |
| 9NB4 | X-ray | 1.8 Å | A=134-345 |
| 9NB7 | X-ray | 1.8 Å | A=134-345 |
| 9NBF | X-ray | 1.8 Å | A=134-345 |
| 9NBJ | X-ray | 1.8 Å | A=134-345 |
| 9NBK | X-ray | 1.8 Å | A=134-345 |
| 9NBN | X-ray | 1.8 Å | A=134-345 |
Showing 20 of 54 experimental structures (best resolution first).
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