CRISPR-associated endonuclease Cas12a (cas12a) is a 1307-residue protein from Acidaminococcus sp. (strain BV3L6). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: U2UMQ6.
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The mean pLDDT of this model is 92.3 (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 | 76% |
| 70 to 90 | Confident: backbone generally right | 22% |
| 50 to 70 | Low: treat with caution | 2% |
| Below 50 | Very low: often disordered regions | 1% |
What pLDDT means and how to read it
CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Recognizes a short motif in the CRISPR repeat sequences (the 5' PAM or protospacer adjacent motif, TTTN in this organism) to help distinguish self versus nonself, as targets within the bacterial CRISPR locus do not have PAMs (PubMed:26422227). Has dsDNA endonuclease activity, results in staggered…
Monomer (PubMed:27114038)
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 5XH6 | X-ray | 2.0 Å | A=1-1307 |
| 5XH7 | X-ray | 2.0 Å | A=1-1307 |
| 9MK3 | X-ray | 2.7 Å | A/E=1-1307 |
| 5B43 | X-ray | 2.8 Å | A=1-1307 |
| 22FN | EM | 3.17 Å | A=1-1307 |
| 5KK5 | X-ray | 3.29 Å | A=1-1307 |
| 8SFL | EM | 3.3 Å | A=1-1307 |
| 8SFN | EM | 3.3 Å | A=1-1307 |
| 8SFO | EM | 3.3 Å | A=1-1307 |
| 8SFH | EM | 3.4 Å | A=1-1307 |
| 9CJI | EM | 3.4 Å | A=1-1307 |
| 8SFI | EM | 3.5 Å | A=1-1307 |
| 8SFQ | EM | 3.5 Å | A=1-1307 |
| 8SFR | EM | 3.5 Å | A=1-1307 |
| 9CJJ | EM | 3.5 Å | A=1-1307 |
| 8SFJ | EM | 3.6 Å | A=1-1307 |
| 9CJH | EM | 3.6 Å | A=1-1307 |
| 8SFP | EM | 3.8 Å | A=1-1307 |
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