37
Views
39
CrossRef citations to date
0
Altmetric
Article

The Arginine Attenuator Peptide Interferes with the Ribosome Peptidyl Transferase Center

, &
Pages 2396-2406 | Received 28 Jan 2012, Accepted 09 Apr 2012, Published online: 20 Mar 2023

REFERENCES

  • Bhushan S, et al. 2010. Structural basis for translational stalling by human cytomegalovirus and fungal arginine attenuator peptide. Mol. Cell 40:138–146.
  • Brar GA, et al. 2012. High-resolution view of the yeast meiotic program revealed by ribosome profiling. Science 335:552–557.
  • Calvo SE, Pagliarini DJ, Mootha VK. 2009. Upstream open reading frames cause widespread reduction of protein expression and are polymorphic among humans. Proc. Natl. Acad. Sci. U. S. A. 106:7507–7512.
  • Cao J, Geballe AP. 1996. Coding sequence-dependent ribosomal arrest at termination of translation. Mol. Cell. Biol. 16:603–608.
  • Cao J, Geballe AP. 1996. Inhibition of nascent-peptide release at translation termination. Mol. Cell. Biol. 16:7109–7114.
  • Cao J, Geballe AP. 1994. Mutational analysis of the translational signal in the human cytomegalovirus gpUL4 (gp48) transcript leader by retroviral infection. Virology 205:151–160.
  • Cao J, Geballe AP. 1998. Ribosomal release without peptidyl tRNA hydrolysis at translation termination in a eukaryotic system. RNA 4:181–188.
  • Chiba S, et al. 2011. Recruitment of a species-specific translational arrest module to monitor different cellular processes. Proc. Natl. Acad. Sci. U. S. A. 108:6073–6078.
  • Chiba S, Lamsa A, Pogliano K. 2009. A ribosome-nascent chain sensor of membrane protein biogenesis in Bacillus subtilis. EMBO J. 28:3461–3475.
  • Chiba Y, et al. 2003. S-Adenosyl-l-methionine is an effector in the posttranscriptional autoregulation of the cystathionine gamma-synthase gene in Arabidopsis. Proc. Natl. Acad. Sci. U. S. A. 100:10225–10230.
  • Churbanov A, Rogozin IB, Babenko VN, Ali H, Koonin EV. 2005. Evolutionary conservation suggests a regulatory function of AUG triplets in 5′-UTRs of eukaryotic genes. Nucleic Acids Res. 33:5512–5520.
  • Cruz-Vera LR, Gong M, Yanofsky C. 2006. Changes produced by bound tryptophan in the ribosome peptidyl transferase center in response to TnaC, a nascent leader peptide. Proc. Natl. Acad. Sci. U. S. A. 103:3598–3603.
  • Cruz-Vera LR, Rajagopal S, Squires C, Yanofsky C. 2005. Features of ribosome-peptidyl-tRNA interactions essential for tryptophan induction of tna operon expression. Mol. Cell 19:333–343.
  • Cruz-Vera LR, Sachs MS, Squires CL, Yanofsky C. 2011. Nascent polypeptide sequences that influence ribosome function. Curr. Opin. Microbiol. 14:160–166.
  • Davis RL. 1996. Polyamines in fungi, p 347–356. InBrambl R, Marzluf G A (ed), The mycota: biochemistry and molecular biology, vol. 3. Springer-Verlag, Heidelberg, Germany.
  • Dubnau D. 1985. Induction of ermC requires translation of the leader peptide. EMBO J. 4:533–537.
  • Fang P, Spevak CC, Wu C, Sachs MS. 2004. A nascent polypeptide domain that can regulate translation elongation. Proc. Natl. Acad. Sci. U. S. A. 101:4059–4064.
  • Fang P, Wang Z, Sachs MS. 2000. Evolutionarily conserved features of the arginine attenuator peptide provide the necessary requirements for its function in translational regulation. J. Biol. Chem. 275:26710–26719.
  • Fang P, Wu C, Sachs MS. 2002. Neurospora crassa supersuppressor mutants are amber codon-specific. Fungal Genet. Biol. 36:167–175.
  • Gaba A, Jacobson A, Sachs MS. 2005. Ribosome occupancy of the yeast CPA1 upstream open reading frame termination codon modulates nonsense-mediated mRNA decay. Mol. Cell 20:449–460.
  • Gaba A, Wang Z, Krishnamoorthy T, Hinnebusch AG, Sachs MS. 2001. Physical evidence for distinct mechanisms of translational control by upstream open reading frames. EMBO J. 20:6453–6463.
  • Galagan JE, et al. 2005. Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae. Nature 438:1105–1115.
  • Gong F, Ito K, Nakamura Y, Yanofsky C. 2001. The mechanism of tryptophan induction of tryptophanase operon expression: tryptophan inhibits release factor-mediated cleavage of TnaC-peptidyl-tRNAPro. Proc. Natl. Acad. Sci. U. S. A. 98:8997–9001.
  • Hansen JL, Moore PB, Steitz TA. 2003. Structures of five antibiotics bound at the peptidyl transferase center of the large ribosomal subunit. J. Mol. Biol. 330:1061–1075.
  • Hood HM, Neafsey DE, Galagan J, Sachs MS. 2009. Evolutionary roles of upstream open reading frames in mediating gene regulation in fungi. Annu. Rev. Microbiol. 63:385–409.
  • Hood HM, Spevak CC, Sachs MS. 2007. Evolutionary changes in the fungal carbamoyl-phosphate synthetase small subunit gene and its associated upstream open reading frame. Fungal Genet. Biol. 44:93–104.
  • Iacono M, Mignone F, Pesole G. 2005. uAUG and uORFs in human and rodent 5′ untranslated mRNAs. Gene 349:97–105.
  • Ito K, Chiba S, Pogliano K. 2010. Divergent stalling sequences sense and control cellular physiology. Biochem. Biophys. Res. Commun. 393:1–5.
  • Janzen DM, Frolova L, Geballe AP. 2002. Inhibition of translation termination mediated by an interaction of eukaryotic release factor 1 with a nascent peptidyl-tRNA. Mol. Cell. Biol. 22:8562–8570.
  • Kurian L, Palanimurugan R, Godderz D, Dohmen RJ. 2011. Polyamine sensing by nascent ornithine decarboxylase antizyme stimulates decoding of its mRNA. Nature 477:490–494.
  • Lawrence MG, Lindahl L, Zengel JM. 2008. Effects on translation pausing of alterations in protein and RNA components of the ribosome exit tunnel. J. Bacteriol. 190:5862–5869.
  • Lovett PS. 1996. Translation attenuation regulation of chloramphenicol resistance in bacteria—a review. Gene 179:157–162.
  • Luo Z, Freitag M, Sachs MS. 1995. Translational regulation in response to changes in amino acid availability in Neurospora crassa. Mol. Cell. Biol. 15:5235–5245.
  • Luo Z, Sachs MS. 1996. Role of an upstream open reading frame in mediating arginine-specific translational control in Neurospora crassa. J. Bacteriol. 178:2172–2177.
  • Morris DR, Geballe AP. 2000. Upstream open reading frames as regulators of mRNA translation. Mol. Cell. Biol. 20:8635–8642.
  • Muto H, Ito K. 2008. Peptidyl-prolyl-tRNA at the ribosomal P-site reacts poorly with puromycin. Biochem. Biophys. Res. Commun. 366:1043–1047.
  • Muto H, Nakatogawa H, Ito K. 2006. Genetically encoded but nonpolypeptide prolyl-tRNA functions in the A site for SecM-mediated ribosomal stall. Mol. Cell 22:545–552.
  • Nakatogawa H, Murakami A, Ito K. 2004. Control of SecA and SecM translation by protein secretion. Curr. Opin. Microbiol. 7:145–150.
  • Onouchi H, et al. 2005. Nascent peptide-mediated translation elongation arrest coupled with mRNA degradation in the CGS1 gene of Arabidopsis. Genes Dev. 19:1799–1810.
  • Onoue N, et al. 2011. S-Adenosyl-l-methionine induces compaction of nascent peptide chain inside the ribosomal exit tunnel upon translation arrest in the Arabidopsis CGS1 gene. J. Biol. Chem. 286:14903–14912.
  • Pavesi A, Conterio F, Bolchi A, Dieci G, Ottonello S. 1994. Identification of new eukaryotic tRNA genes in genomic DNA databases by a multistep weight matrix analysis of transcriptional control regions. Nucleic Acids Res. 22:1247–1256.
  • Pitonzo D, Yang Z, Matsumura Y, Johnson AE, Skach WR. 2009. Sequence-specific retention and regulated integration of a nascent membrane protein by the endoplasmic reticulum Sec61 translocon. Mol. Biol. Cell 20:685–698.
  • Ramu H, Mankin A, Vazquez-Laslop N. 2009. Programmed drug-dependent ribosome stalling. Mol. Microbiol. 71:811–824.
  • Ramu H, et al. 2011. Nascent peptide in the ribosome exit tunnel affects functional properties of the A-site of the peptidyl transferase center. Mol. Cell 41:321–330.
  • Raney A, Law GL, Mize GJ, Morris DR. 2002. Regulated translation termination at the upstream open reading frame in S-adenosylmethionine decarboxylase mRNA. J. Biol. Chem. 277:5988–5994.
  • Sachs MS, Geballe AP. 2006. Downstream control of upstream open reading frames. Genes Dev. 20:915–921.
  • Sachs MS, et al. 2002. Toeprint analysis of the positioning of translational apparatus components at initiation and termination codons of fungal mRNAs. Methods 26:105–114.
  • Shantz LM, Pegg AE. 1999. Translational regulation of ornithine decarboxylase and other enzymes of the polyamine pathway. Int. J. Biochem. Cell Biol. 31:107–122.
  • Spevak CC, Ivanov IP, Sachs MS. 2010. Sequence requirements for ribosome stalling by the arginine attenuator peptide. J. Biol. Chem. 285:40933–40942.
  • Varshney U, Lee CP, RajBhandary UL. 1991. Direct analysis of aminoacylation levels of tRNAs in vivo. Application to studying recognition of Escherichia coli initiator tRNA mutants by glutaminyl-tRNA synthetase. J. Biol. Chem. 266:24712–24718.
  • Vazquez-Laslop N, Mankin AS. 2011. Picky nascent peptides do not talk to foreign ribosomes. Proc. Natl. Acad. Sci. U. S. A. 108:5931–5932.
  • Vazquez-Laslop N, Ramu H, Klepacki D, Kannan K, Mankin AS. 2010. The key function of a conserved and modified rRNA residue in the ribosomal response to the nascent peptide. EMBO J. 29:3108–3117.
  • Wang Z, Fang P, Sachs MS. 1998. The evolutionarily conserved eukaryotic arginine attenuator peptide regulates the movement of ribosomes that have translated it. Mol. Cell. Biol. 18:7528–7536.
  • Wang Z, Gaba A, Sachs MS. 1999. A highly conserved mechanism of regulated ribosome stalling mediated by fungal arginine attenuator peptides that appears independent of the charging status of arginyl-tRNAs. J. Biol. Chem. 274:37565–37574.
  • Wang Z, Sachs MS. 1997. Arginine-specific regulation mediated by the Neurospora crassa arg-2 upstream open reading frame in a homologous, cell-free in vitro translation system. J. Biol. Chem. 272:255–261.
  • Wang Z, Sachs MS. 1997. Ribosome stalling is responsible for arginine-specific translational attenuation in Neurospora crassa. Mol. Cell. Biol. 17:4904–4913.
  • Werner M, Feller A, Piérard A. 1985. Nucleotide sequence of yeast gene CPA1 encoding the small subunit of arginine-pathway carbamoyl-phosphate synthetase: homology of the deduced amino acid sequence to other glutamine amidotransferases. Eur. J. Biochem. 146:371–381.
  • Wohlgemuth I, Brenner S, Beringer M, Rodnina MV. 2008. Modulation of the rate of peptidyl transfer on the ribosome by the nature of substrates. J. Biol. Chem. 283:32229–32235.
  • Woolhead CA, Johnson AE, Bernstein HD. 2006. Translation arrest requires two-way communication between a nascent polypeptide and the ribosome. Mol. Cell 22:587–598.
  • Wu C, Amrani N, Jacobson A, Sachs MS. 2007. The use of fungal in vitro systems for studying translational regulation. Methods Enzymol. 429:203–225.
  • Wu C, et al. 2012. Arginine changes the conformation of the arginine attenuator peptide relative to the ribosome tunnel. J. Mol. Biol. 416:518–533.
  • Yanagitani K, Kimata Y, Kadokura H, Kohno K. 2011. Translational pausing ensures membrane targeting and cytoplasmic splicing of XBP1u mRNA. Science 331:586–589.
  • Yap MN, Bernstein HD. 2009. The plasticity of a translation arrest motif yields insights into nascent polypeptide recognition inside the ribosome tunnel. Mol. Cell 34:201–211.

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.