Non-stop mRNA decay initiates at the ribosome

Molecular Microbiology

Volumn 78, Issue 5, 2010, Pages 1159-1170

  Ge, Zhiyun ^a   Mehta, Preeti ^a   Richards, Jamie ^a   Karzai, A Wali ^a  

^a STONY BROOK UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EXORIBONUCLEASE; LYSINE; MESSENGER RNA; NON STOP MESSENGER RNA; PANCREATIC RIBONUCLEASE; PROTEIN SM; RIBONUCLEASE; RIBONUCLEASE R; TRANSFER RNA; UNCLASSIFIED DRUG;

AMINO TERMINAL SEQUENCE; ANIMAL CELL; ARTICLE; CONTROLLED STUDY; ENZYME ACTIVITY; NONHUMAN; NONSENSE MEDIATED MRNA DECAY; PRIORITY JOURNAL; PROTEIN DOMAIN; RIBOSOME; RNA DEGRADATION; STOP CODON;

CODON, TERMINATOR; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; EXORIBONUCLEASES; NUCLEIC ACID CONFORMATION; RIBOSOMES; RNA STABILITY; RNA, MESSENGER;

EID: 78649617733     PISSN: 0950382X     EISSN: 13652958     Source Type: Journal    
DOI: 10.1111/j.1365-2958.2010.07396.x     Document Type: Article

References (24)

1. Atkins, J.F., and Gesteland, R.F. (1996) A case for trans translation. Nature 379: 769-771.
2. Chen, C., and Deutscher, M.P. (2010) RNase R is a highly unstable protein regulated by growth phase and stress. RNA 16: 667-672.
3. Dulebohn, D., Choy, J., Sundermeier, T., Okan, N., and Karzai, A.W. (2007) Trans-translation: the tmRNA-mediated surveillance mechanism for ribosome rescue, directed protein degradation, and nonstop mRNA decay. Biochemistry 46: 4681-4693.
4. Frazao, C., McVey, C.E., Amblar, M., Barbas, A., Vonrhein, C., Arraiano, C.M., and Carrondo, M.A. (2006) Unravelling the dynamics of RNA degradation by ribonuclease II and its RNA-bound complex. Nature 443: 110-114.
5. Gillet, R., and Felden, B. (2001) Emerging views on tmRNA-mediated protein tagging and ribosome rescue. Mol Microbiol 42: 879-886.
6. Grzymski, E.C. (2003) tmRNA to the rescue. Nat Struct Biol 10: 321.
7. Gutmann, S., Haebel, P.W., Metzinger, L., Sutter, M., Felden, B., and Ban, N. (2003) Crystal structure of the transfer-RNA domain of transfer-messenger RNA in complex with SmpB. Nature 424: 699-703.
8. Haebel, P.W., Gutmann, S., and Ban, N. (2004) Dial tm for rescue: tmRNA engages ribosomes stalled on defective mRNAs. Curr Opin Struct Biol 14: 58-65.
9. Karzai, A.W., and Sauer, R.T. (2001) Protein factors associated with the SsrA.SmpB tagging and ribosome rescue complex. Proc Natl Acad Sci USA 98: 3040-3044.
10. Karzai, A.W., Susskind, M.M., and Sauer, R.T. (1999) SmpB, a unique RNA-binding protein essential for the peptide-tagging activity of SsrA (tmRNA). EMBO J 18: 3793-3799.
11. Karzai, A.W., Roche, E.D., and Sauer, R.T. (2000) The SsrA-SmpB system for protein tagging, directed degradation and ribosome rescue. Nat Struct Biol 7: 449-455.
12. Keiler, K.C., Waller, P.R., and Sauer, R.T. (1996) Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA. Science 271: 990-993.
13. Kramer, G., Boehringer, D., Ban, N., and Bukau, B. (2009) The ribosome as a platform for co-translational processing, folding and targeting of newly synthesized proteins. Nat Struct Mol Biol 16: 589-597.
14. Matos, R.G., Barbas, A., and Arraiano, C.M. (2009) RNase R mutants elucidate the catalysis of structured RNA: RNA-binding domains select the RNAs targeted for degradation. Biochem J 423: 291-301.
15. Mehta, P., Richards, J., and Karzai, A.W. (2006) tmRNA determinants required for facilitating nonstop mRNA decay. RNA 12: 2187-2198.
16. Muto, A., Ushida, C., and Himeno, H. (1998) A bacterial RNA that functions as both a tRNA and an mRNA. Trends Biochem Sci 23: 25-29.
17. Richards, J., Mehta, P., and Karzai, A.W. (2006) RNase R degrades non-stop mRNAs selectively in an SmpB-tmRNA-dependent manner. Mol Microbiol 62: 1700-1712.
18. Sundermeier, T., Ge, Z., Richards, J., Dulebohn, D., and Karzai, A.W. (2008) Studying tmRNA-mediated surveillance and nonstop mRNA decay. Methods Enzymol 447: 329-358.
19. Sundermeier, T.R., and Karzai, A.W. (2007) Functional SmpB-ribosome interactions require tmRNA. J Biol Chem 282: 34779-34786.
20. Vincent, H.A., and Deutscher, M.P. (2009a) Insights into how RNase R degrades structured RNA: analysis of the nuclease domain. J Mol Biol 387: 570-583.
21. Vincent, H.A., and Deutscher, M.P. (2009b) The roles of individual domains of RNase R in substrate binding and exoribonuclease activity. The nuclease domain is sufficient for digestion of structured RNA. J Biol Chem 284: 486-494.
22. Withey, J.H., and Friedman, D.I. (2002) The biological roles of trans-translation. Curr Opin Microbiol 5: 154-159.
23. Withey, J.H., and Friedman, D.I. (2003) A salvage pathway for protein structures: tmRNA and trans-translation. Annu Rev Microbiol 57: 101-123.
24. Zuo, Y., Vincent, H.A., Zhang, J., Wang, Y., Deutscher, M.P., and Malhotra, A. (2006) Structural basis for processivity and single-strand specificity of RNase II. Mol Cell 24: 149-156.