Large ribosomal subunit protein bL25 (rplY) is a 94-residue protein from Escherichia coli (strain K12). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P68919.
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The mean pLDDT of this model is 96.4 (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 | 99% |
| 70 to 90 | Confident: backbone generally right | 1% |
| 50 to 70 | Low: treat with caution | 0% |
| Below 50 | Very low: often disordered regions | 0% |
What pLDDT means and how to read it
This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. Binds to the 5S rRNA independently of L5 and L18. Not required for binding of the 5S rRNA/L5/L18 subcomplex to 23S rRNA
Part of the 50S ribosomal subunit (PubMed:1093874, PubMed:1100506, Ref.4, PubMed:10094780, PubMed:10756104, PubMed:12809609, PubMed:16272117, PubMed:25310980, PubMed:24844575, PubMed:27934701, PubMed:27906160, PubMed:27906161); part of the 5S rRNA/L5/L18/L25 subcomplex (PubMed:354687, PubMed:8925931). Contacts the 5S rRNA (PubMed:10562563, PubMed:10696113, PubMed:3298242)
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 8B0X | EM | 1.55 Å | u=1-94 |
| 9Q87 | EM | 1.55 Å | u=1-94 |
| 8CGK | EM | 1.64 Å | u=1-94 |
| 8CGV | EM | 1.66 Å | u=1-94 |
| 1DFU | X-ray | 1.8 Å | P=1-94 |
| 8CEU | EM | 1.83 Å | u=1-94 |
| 8FTO | EM | 1.85 Å | u=1-94 |
| 8CAM | EM | 1.86 Å | u=1-94 |
| 9GHE | EM | 1.87 Å | u=1-94 |
| 9D89 | EM | 1.95 Å | u=1-94 |
| 8AYE | EM | 1.96 Å | u=1-94 |
| 7K00 | EM | 1.98 Å | u=1-94 |
| 8CGD | EM | 1.98 Å | u=1-94 |
| 8ANA | EM | 2.0 Å | u=1-94 |
| 8QOA | EM | 2.0 Å | u=1-94 |
| 8G6W | EM | 2.02 Å | u=1-94 |
| 8BIL | EM | 2.04 Å | S=1-94 |
| 8BIM | EM | 2.04 Å | S=1-94 |
| 8G6Y | EM | 2.09 Å | u=1-94 |
| 4YBB | X-ray | 2.1 Å | CW/DW=1-94 |
Showing 20 of 570 experimental structures (best resolution first).
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