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TitleMolecular and structural basis of a subfamily of PrfH rescuing both the damaged and intact ribosomes stalled in translation.
Journal, issue, pagesbioRxiv, Year 2025
Publish dateJan 9, 2025
AuthorsYannan Tian / Qingrong Li / Shirin Fatma / Junyi Jiang / Hong Jin / Fuxing Zeng / Raven H Huang /
PubMed AbstractIn bacteria, spontaneous mRNAs degradation and ribotoxin-induced RNA damage are two main biological events that lead to the stall of protein translation. The ubiquitous trans-translation system as ...In bacteria, spontaneous mRNAs degradation and ribotoxin-induced RNA damage are two main biological events that lead to the stall of protein translation. The ubiquitous trans-translation system as well as several alternative rescue factors (Arfs) are responsible for rescuing the stalled ribosomes caused by truncated mRNAs that lack the stop codons. To date, protein release factor homolog (PrfH) is the only factor known to rescue the stalled ribosome damaged by ribotoxins. Here we show that a subfamily of PrfH, exemplified by PrfH from (PrfH), rescues both types of stalled ribosomes described above. Our biochemical assays demonstrate that PrfH hydrolyzes the peptides attached to P-site tRNAs when in complex with both the damaged and intact ribosomes. Two cryo-EM structures of PrfH in complex with the damaged and intact 70S ribosomes revealed that PrfH employs two different regions of the protein to recognize two different stalled ribosomes to orient the GGQ motif for peptide hydrolysis. Thus, using a combination of bioinformatic, biochemical, and structural characterization described here, we have uncovered a family of ribosome rescue factors that possesses dual activities to resolve two distinct stalled protein translation in bacteria.
External linksbioRxiv / PubMed:39829893 / PubMed Central
MethodsEM (single particle)
Resolution2.65 - 2.78 Å
Structure data

48479

9mor

EMDB-48479, PDB-9mor:
Damaged 70S ribosome with PrfH bound
Method: EM (single particle) / Resolution: 2.65 Å

48513

9mq4

EMDB-48513, PDB-9mq4:
Damaged 70S ribosome with PrfH bound
Method: EM (single particle) / Resolution: 2.78 Å

Chemicals

ChemComp-MG:
Unknown entry

ChemComp-ZN:
Unknown entry

ChemComp-HOH:
WATER

Source
  • escherichia coli (E. coli)
  • capnocytophaga gingivalis (bacteria)
  • escherichia coli 0.1197 (bacteria)
KeywordsRIBOSOME / CgPrfH / damaged ribosome / ribotoxin

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