Large ribosomal subunit protein bL25 (rplY) is a 206-residue protein from Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q5SHZ1.
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The mean pLDDT of this model is 85.8 (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 | 69% |
| 70 to 90 | Confident: backbone generally right | 17% |
| 50 to 70 | Low: treat with caution | 7% |
| Below 50 | Very low: often disordered regions | 7% |
What pLDDT means and how to read it
This is one of 3 proteins that mediate the attachment of the 5S rRNA onto the large ribosomal subunit
Part of the 50S ribosomal subunit. Contacts the 5S rRNA; has been isolated in a complex with 5S rRNA and uL5, 5S rRNA and DNA binding protein II; 5S rRNA and uL18; 5S rRNA, uL5 and DNA binding protein II (Ref.4)
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 9NO7 | EM | 2.13 Å | Z=1-206 |
| 4Y4O | X-ray | 2.3 Å | 1Z/2Z=1-206 |
| 8CVL | X-ray | 2.3 Å | 1Z/2Z=1-206 |
| 8FC6 | X-ray | 2.35 Å | 1Z/2Z=1-206 |
| 8VTW | X-ray | 2.35 Å | 1Z/2Z=1-206 |
| 4W2F | X-ray | 2.4 Å | BZ/DZ=1-206 |
| 6XHV | X-ray | 2.4 Å | 1Z/2Z=1-206 |
| 7RQA | X-ray | 2.4 Å | 1Z/2Z=1-206 |
| 7RQE | X-ray | 2.4 Å | 1Z/2Z=1-206 |
| 8CVJ | X-ray | 2.4 Å | 1Z/2Z=1-206 |
| 8VTU | X-ray | 2.4 Å | 1Z/2Z=1-206 |
| 8VTX | X-ray | 2.4 Å | 1Z/2Z=1-206 |
| 9MTP | X-ray | 2.4 Å | 1Z/2Z=1-206 |
| 10PX | X-ray | 2.45 Å | 1Z/2Z=1-206 |
| 7RQB | X-ray | 2.45 Å | 1Z/2Z=1-206 |
| 8FC4 | X-ray | 2.45 Å | 1Z/2Z=1-206 |
| 8G2A | X-ray | 2.45 Å | 1Z/2Z=1-206 |
| 9D0I | X-ray | 2.45 Å | 1Z/2Z=1-206 |
| 4Y4P | X-ray | 2.5 Å | 1Z/2Z=1-206 |
| 6XHW | X-ray | 2.5 Å | 1Z/2Z=1-206 |
Showing 20 of 268 experimental structures (best resolution first).
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