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TitleStructural basis of l-tryptophan-dependent inhibition of release factor 2 by the TnaC arrest peptide.
Journal, issue, pagesNucleic Acids Res, Vol. 49, Issue 16, Page 9539-9547, Year 2021
Publish dateSep 20, 2021
AuthorsTing Su / Renuka Kudva / Thomas Becker / Robert Buschauer / Tobias Komar / Otto Berninghausen / Gunnar von Heijne / Jingdong Cheng / Roland Beckmann /
PubMed AbstractIn Escherichia coli, elevated levels of free l-tryptophan (l-Trp) promote translational arrest of the TnaC peptide by inhibiting its termination. However, the mechanism by which translation- ...In Escherichia coli, elevated levels of free l-tryptophan (l-Trp) promote translational arrest of the TnaC peptide by inhibiting its termination. However, the mechanism by which translation-termination by the UGA-specific decoding release factor 2 (RF2) is inhibited at the UGA stop codon of stalled TnaC-ribosome-nascent chain complexes has so far been ambiguous. This study presents cryo-EM structures for ribosomes stalled by TnaC in the absence and presence of RF2 at average resolutions of 2.9 and 3.5 Å, respectively. Stalled TnaC assumes a distinct conformation composed of two small α-helices that act together with residues in the peptide exit tunnel (PET) to coordinate a single L-Trp molecule. In addition, while the peptidyl-transferase center (PTC) is locked in a conformation that allows RF2 to adopt its canonical position in the ribosome, it prevents the conserved and catalytically essential GGQ motif of RF2 from adopting its active conformation in the PTC. This explains how translation of the TnaC peptide effectively allows the ribosome to function as a L-Trp-specific small-molecule sensor that regulates the tnaCAB operon.
External linksNucleic Acids Res / PubMed:34403461 / PubMed Central
MethodsEM (single particle)
Resolution2.9 - 3.5 Å
Structure data

12936

7oiz

EMDB-12936, PDB-7oiz:
Cryo-EM structure of 70S ribosome stalled with TnaC peptide
Method: EM (single particle) / Resolution: 2.9 Å

12937

7oj0

EMDB-12937, PDB-7oj0:
Cryo-EM structure of 70S ribosome stalled with TnaC peptide and RF2
Method: EM (single particle) / Resolution: 3.5 Å

13180

7p3k

EMDB-13180, PDB-7p3k:
Cryo-EM structure of 70S ribosome stalled with TnaC peptide (control)
Method: EM (single particle) / Resolution: 2.9 Å

Chemicals

ChemComp-PAR:
PAROMOMYCIN / Antimicrobial, medication*YM / Paromomycin

ChemComp-MG:
Unknown entry

ChemComp-TRP:
TRYPTOPHAN / Tryptophan

ChemComp-ZN:
Unknown entry

ChemComp-CLM:
CHLORAMPHENICOL / antibiotic*YM / Chloramphenicol

Source
  • escherichia coli k-12 (bacteria)
  • escherichia coli (strain k12) (bacteria)
KeywordsRIBOSOME / Arrest Peptide / Translational stalling / Gene regulation / Translation termination

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