Photosystem I reaction center subunit II, chloroplastic is a 138-residue protein from Pisum sativum. This is its AlphaFold structure prediction, created 1 Jun 2022. UniProt accession: E1C9K8.
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The mean pLDDT of this model is 93.2 (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 | 86% |
| 70 to 90 | Confident: backbone generally right | 14% |
| 50 to 70 | Low: treat with caution | 0% |
| Below 50 | Very low: often disordered regions | 0% |
What pLDDT means and how to read it
PsaD can form complexes with ferredoxin and ferredoxin-oxidoreductase in photosystem I (PS I) reaction center. PSAD may encode the ferredoxin-docking protein
Plastid, chloroplast thylakoid membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 7DKZ | X-ray | 2.39 Å | D=1-138 |
| 6YAC | EM | 2.5 Å | D=1-138 |
| 5L8R | X-ray | 2.6 Å | D=1-138 |
| 6YEZ | EM | 2.7 Å | D=1-138 |
| 6ZOO | EM | 2.74 Å | D=1-138 |
| 4Y28 | X-ray | 2.8 Å | D=1-138 |
| 4RKU | X-ray | 3.0 Å | D=1-134 |
| 6ZXS | X-ray | 3.0 Å | D=1-138 |
| 3LW5 | X-ray | 3.3 Å | D=1-138 |
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