Cytoplasmic degradation of ssrA-tagged proteins

Molecular Microbiology

Volumn 57, Issue 6, 2005, Pages 1750-1761

  Farrell, Christopher M ^a   Grossman, Alan D ^a   Sauer, Robert T ^a  

^a MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADAPTOR PROTEIN; ENDOPEPTIDASE CLP; ENDOPEPTIDASE CLPX; PROTEIN CLPA; PROTEIN CLPS; PROTEIN SSRA; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL GROWTH; CHROMOSOME; CYTOPLASM; ESCHERICHIA COLI; IN VITRO STUDY; IN VIVO STUDY; NONHUMAN; PRIORITY JOURNAL; PROTEIN DEGRADATION; WILD TYPE;

ADENOSINE TRIPHOSPHATASES; CULTURE MEDIA; CYTOPLASM; ENDOPEPTIDASE CLP; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; GENE EXPRESSION REGULATION, BACTERIAL; GREEN FLUORESCENT PROTEINS; MOLECULAR CHAPERONES; RNA, BACTERIAL;

ESCHERICHIA COLI;

EID: 25144452838     PISSN: 0950382X     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1365-2958.2005.04798.x     Document Type: Article

References (35)

1. Andersen, J.B., Sternberg, C., Poulsen, L.K., Bjorn, S.P., Givskov, M., and Molin, S. (1998) New unstable variants of green fluorescent protein for studies of transient gene expression in bacteria. Appl Environ Microbiol 64: 2240-2246.
2. Bohn, C., Binet, E., and Bouloc, P. (2002) Screening for stabilization of proteins with a trans-translation signature in Escherichia coli selects for inactivation of the ClpXP protease. Mol Genet Genomics 266: 827-831.
3. Burton, R.E., Siddiqui, S.M., Kim, Y.I., Baker, T.A., and Sauer, R.T. (2001) Effects of protein stability and structure on substrate processing by the ClpXP unfolding and degradation machine. EMBO J 20: 3092-3100.
4. Datsenko, K.A., and Wanner, B.L. (2000) One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc Natl Acad Sci USA 97: 6640-6645.
5. Dougan, D.A., Reid, B.G., Norwich, A.L., and Bukau, B. (2002) ClpS, a substrate modulator of the ClpAP machine. Mol Cell 9: 673-683.
6. Flynn, J.M., Levchenko, I., Seidel, M., Wickner, S.H., Sauer, R.T., and Baker, T.A. (2001) Overlapping recognition determinants within the ssrA degradation tag allow modulation of proteolysis. Proc Natl Acad Sci USA 11: 10584-10589.
7. Flynn, J.M., Levchenko, I., Sauer, R.T., and Baker, T.A. (2004) Modulating substrate choice: the SspB adaptor delivers a regulator of the extracytoplasmic-stress response to the AAA+ protease ClpXP for degradation. Genes Dev 18: 2292-2301.
8. Gottesman, S., Clark, W.P., and Maurizi, M.R. (1990) The ATP-dependent Clp protease of Escherichia coli. Sequence of clpA and identification of a Clp-specific substrate. J Biol Chem 265: 7886-7893.
9. Gottesman, S., Roche, E., Zhou, Y., and Sauer, R.T. (1998) The ClpXP and ClpAP proteases degrade proteins with carboxy-terminal peptide tails added by the SsrA-tagging system. Genes Dev 12: 1338-1347.
10. Guo, F., Esser, L., Singh, S.K., Maurizi, M.R., and Xia, D. (2002) Crystal structure of the heterodimeric complex of the adaptor, ClpS, with the N-domain of the AAA+ chaperone, ClpA. J Biol Chem 277: 46753-46762.
11. Herman, C., Thevenet, D., Bouloc, P., Walker, G.C., and D'Ari, R. (1998) Degradation of carboxy-terminal-tagged cytoplasmic proteins by the Escherichia coli protease HflB (FtsH). Genes Dev 12: 1348-1355.
12. Herman, C., Prakash, S., Lu, C.Z., Matouschek, A., and Gross, C.A. (2003) Lack of a robust unfoldase activity confers a unique level of substrate specificity to the universal AAA protease FtsH. Mol Cell 11: 659-669.
13. Hoskins, J.R., Sharma, S., Sathyanarayana, B.K., and Wickner, S. (2001) Clp ATPases and their role in protein unfolding and degradation. Adv Protein Chem 59: 413-429.
14. Huang, G.S., and Oas, T.G. (1995) Submillisecond folding of monomeric lambda repressor. Proc Natl Acad Sci USA 92: 6878-6882.
15. Jensen, P.R., and Hammer, K. (1998) Artificial promoters for metabolic optimization. Biotechnol Bioeng 58: 191-195.
16. Joshi, S.A., Hersch, G.L., Baker, T.A., and Sauer, R.T. (2004) Communication between ClpX and ClpP during substrate processing and degradation. Nat Struct Mol Biol 11: 404-411.
17. 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.
18. Keiler, K.C., Waller, P.R.H., and Sauer, R.T. (1996) Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA. Science 271: 990-993.
19. Kenniston, J.A., Baker, T.A., Fernandez, J.M., and Sauer, R.T. (2003) Linkage between ATP consumption and mechanical unfolding during the protein processing reactions of a AAA+ degradation machine. Cell 114: 511-520.
20. Kim, Y.I., Burton, R.E., Burton, B.M., Sauer, R.T., and Baker, T.A. (2000) Dynamics of substrate denaturation and translocation by the ClpXP degradation machine. Mol Cell 5: 639-648.
21. Lee, C., Schwartz, M.P., Prakash, S., Iwakura, M., and Matouschek, A. (2001) ATP-dependent proteases degrade their substrates by processively unraveling them from the degradation signal. Mol Cell 7: 627-637.
22. Levchenko, I., Seidel, M., Sauer, R.T., and Baker, T.A. (2000) A specificity-enhancing factor for the ClpXP degradation machine. Science 289: 2354-2356.
23. Levchenko, I., Grant, R.A., Wah, D.A., Sauer, R.T., and Baker, T.A. (2003) Structure of a delivery protein for a AAA+ protease in complex with a peptide degradation tag. Mol Cell 12: 365-372.
24. Maurizi, M.R., Singh, S.K., Thompson, M.W., Kessel, M., and Ginsburg, A. (1998) Molecular properties of ClpAP protease of Escherichia coli: ATP-dependent association of ClpA and ClpP. Biochemistry 37: 7778-7786.
25. Neidhardt, F.C., and Umbarger, H.E. (1996) Chemical composition of E. coli. In Escherichia coli and Salmonella. Neidhardt, F.C. (ed.). Washington, DC: American Society for Microbiology Press, pp. 13-16.
26. Neidhardt, F.C., Bloch, P.L., and Smith, D.F. (1974) Culture medium for enterobacteria. J Bacteriol 119: 736-747.
27. Ortega, J., Lee, H.S., Maurizi, M.R., and Steven, A.C. (2004) ClpA and ClpX ATPases bind simultaneously to opposite ends of ClpP peptidase to form active hybrid complexes. J Struct Biol 146: 217-226.
28. Sauer, R.T., Bolon, D.N., Burton, B.M., Burton, R.E., Flynn, J.M., Grant, R.A., et al. (2004) Sculpting the proteome with AAA(+) proteases and disassembly machines. Cell 119: 9-18.
29. Singh, S.K., Grimaud, R., Hoskins, J.R., Wickner, S., and Maurizi, M.R. (2000) Unfolding and internalization of proteins by the ATP-dependent proteases ClpXP and ClpAP. Proc Natl Acad Sci USA 97: 8898-8903.
30. Tu, G.F., Reid, G.E., Moritz, R.L., and Simpson, R.J. (1995) C-terminal extension of truncated recombinant proteins in Escherichia coli with a 10Sa RNA decapeptide. J Biol Chem 270: 9322-9326.
31. Wah, D.A., Levchenko, I., Baker, T.A., and Sauer, R.T. (2002) Characterization of a specificity factor for a AAA+ ATPase: assembly of SspB dimers with ssrA-tagged proteins and the ClpX hexamer. Chem Biol 9: 1237-1245.
32. Wah, D.A., Levchenko, I., Rieckhof, G.E., Bolon, D.N., Baker, T.A., and Sauer, R.T. (2003) Flexible linkers leash the substrate-binding domain of SspB to a peptide module that stabilizes delivery complexes with the AAA+ ClpXP protease. Mol Cell 12: 355-363.
33. Weber-Ban, E.U., Reid, B.G., Miranker, A.D., and Horwich, A.L. (1999) Global unfolding of a substrate protein by the Hsp100 chaperone ClpA. Nature 401: 90-93.
34. Weichart, D., Querfurth, N., Dreger, M., and Hengge-Aronis, R. (2003) Global role for ClpP-containing proteases in stationary-phase adaptation of Escherichia coli. J Bacteriol 185: 115-125.
35. Zeth, K., Ravelli, R.B., Paal, K., Cusack, S., Bukau, B., and Dougan, D.A. (2002) Structural analysis of the adaptor protein ClpS in complex with the N-terminal domain of ClpA. Nat Struct Biol 9: 906-911.