Photosystem II assembly protein Ycf48 (ycf48) is a 347-residue protein from Thermosynechococcus vestitus (strain NIES-2133 / IAM M-273 / BP-1). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q8DI95.
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The mean pLDDT of this model is 89.3 (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 | 84% |
| 70 to 90 | Confident: backbone generally right | 4% |
| 50 to 70 | Low: treat with caution | 1% |
| Below 50 | Very low: often disordered regions | 11% |
What pLDDT means and how to read it
A factor required for optimal assembly of photosystem II (PSII), acting in the early stages of PSII assembly. Also plays a role in replacement of photodamaged D1 (psbA). Assists YidC in synthesis of chlorophyll-binding proteins
Interacts with the D1 protein (crystallized with PsbA1 or PsbA3), via the latter's C-terminal prepropeptide, may interact with parts of the mature D1 protein as well
Cellular thylakoid lumen
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 5OJ5 | X-ray | 1.08 Å | A=1-347 |
| 2XBG | X-ray | 1.5 Å | A=38-347 |
| 5OJP | X-ray | 1.86 Å | A/B/C=39-347 |
| 5OJR | X-ray | 1.96 Å | A/B/C/D=39-347 |
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