FixK2, a key regulator in Bradyrhizobium japonicum, is a substrate for the protease ClpAP in vitro

FEBS Letters

Volumn 587, Issue 1, 2013, Pages 88-93

  Bonnet, Mariette ^a   Stegmann, Monika ^a,c   Maglica, Željka ^a,d   Stiegeler, Emanuel ^a   Weber Ban, Eilika ^a   Hennecke, Hauke ^a   Mesa, Socorro ^a,b  

^a ETH ZURICH   (Switzerland)

^b CSIC   (Spain)

^c UNIVERSITY OF OXFORD   (United Kingdom)

^d EPFL   (Switzerland)

Author keywords

Clp protease; CRP FNR superfamily; FixK2; Regulated proteolysis; Transcription factor

Indexed keywords

PROTEIN CLPAP; PROTEIN CLPAP1; PROTEIN CLPS1; PROTEIN CLPXP1; PROTEIN FIXK2; PROTEINASE; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ARTICLE; BRADYRHIZOBIUM JAPONICUM; ENZYME PURIFICATION; ENZYME SUBSTRATE; IN VITRO STUDY; MOLECULAR RECOGNITION; NONHUMAN; PRIORITY JOURNAL; PROTEIN DEGRADATION; PROTEIN METABOLISM;

BACTERIAL PROTEINS; BINDING SITES; BRADYRHIZOBIUM; ENDOPEPTIDASE CLP; GENES, BACTERIAL; ISOENZYMES; KINETICS; MOLECULAR CHAPERONES; PHYLOGENY; PROTEIN INTERACTION DOMAINS AND MOTIFS; PROTEIN ISOFORMS; PROTEOLYSIS; RECOMBINANT PROTEINS; SUBSTRATE SPECIFICITY;

BRADYRHIZOBIUM JAPONICUM;

EID: 84871720748     PISSN: 00145793     EISSN: 18733468     Source Type: Journal    
DOI: 10.1016/j.febslet.2012.11.014     Document Type: Article

References (31)

1. M.A. Sciotti, A. Chanfon, H. Hennecke, and H.M. Fischer Disparate oxygen responsiveness of two regulatory cascades that control expression of symbiotic genes in Bradyrhizobium japonicum J. Bacteriol. 185 2003 5639 5642
2. 1 cascade in Bradyrhizobium japonicum J. Bacteriol. 190 2008 6568 6579
3. H. Körner, H.J. Sofia, and W.G. Zumft Phylogeny of the bacterial superfamily of Crp-Fnr transcription regulators: exploiting the metabolic spectrum by controlling alternative gene programs FEMS Microbiol. Rev. 27 2003 559 592
4. 2 J. Bacteriol. 187 2005 3329 3338
5. 2, a key regulator for the Bradyrhizobium japonicum-soybean symbiosis Proc. Natl. Acad. Sci. USA 106 2009 21860 21865
6. J.M. Flynn, S.B. Neher, Y.I. Kim, R.T. Sauer, and T.A. Baker Proteomic discovery of cellular substrates of the ClpXP protease reveals five classes of ClpX-recognition signals Mol. Cell 11 2003 671 683
7. 2-sensing [4Fe-4S] cluster J. Mol. Biol. 354 2005 220 232
8. R. Schmidt, B. Bukau, and A. Mogk Principles of general and regulatory proteolysis by AAA+ proteases in Escherichia coli Res. Microbiol. 160 2009 629 636
9. W. Kress, Z. Maglica, and E. Weber-Ban Clp chaperone-proteases: structure and function Res. Microbiol. 160 2009 618 628
10. J.M. Flynn, I. Levchenko, M. Seidel, S.H. Wickner, R.T. Sauer, and T.A. Baker Overlapping recognition determinants within the ssrA degradation tag allow modulation of proteolysis Proc. Natl. Acad. Sci. USA 98 2001 10584 10589
11. S. Gottesman, E. Roche, Y. Zhou, and R.T. Sauer The ClpXP and ClpAP proteases degrade proteins with carboxy-terminal peptide tails added by the SsrA-tagging system Genes Dev. 12 1998 1338 1347
12. D.A. Dougan, K.N. Truscott, and K. Zeth The bacterial N-end rule pathway: expect the unexpected Mol. Microbiol. 76 2010 545 558
13. S.D. Moore, and R.T. Sauer The tmRNA system for translational surveillance and ribosome rescue Annu. Rev. Biochem. 76 2007 101 124
14. I. Levchenko, R.A. Grant, D.A. Wah, R.T. Sauer, and T.A. Baker Structure of a delivery protein for an AAA+ protease in complex with a peptide degradation tag Mol. Cell 12 2003 365 372
15. I. Levchenko, M. Seidel, R.T. Sauer, and T.A. Baker A specificity-enhancing factor for the ClpXP degradation machine Science 289 2000 2354 2356
16. H.K. Song, and M.J. Eck Structural basis of degradation signal recognition by SspB, a specificity-enhancing factor for the ClpXP proteolytic machine Mol. Cell 12 2003 75 86
17. D.A. Dougan, B.G. Reid, A.L. Horwich, and B. Bukau ClpS, a substrate modulator of the ClpAP machine Mol. Cell 9 2002 673 683
18. C.M. Farrell, A.D. Grossman, and R.T. Sauer Cytoplasmic degradation of ssrA-tagged proteins Mol. Microbiol. 57 2005 1750 1761
19. J.R. Hoskins, S.Y. Kim, and S. Wickner Substrate recognition by the ClpA chaperone component of ClpAP protease J. Biol. Chem. 275 2000 35361 35367
20. Z. Maglica, F. Striebel, and E. Weber-Ban An intrinsic degradation tag on the ClpA C-terminus regulates the balance of ClpAP complexes with different substrate specificity J. Mol. Biol. 384 2008 503 511
21. P. Chien, B.S. Perchuk, M.T. Laub, R.T. Sauer, and T.A. Baker Direct and adaptor-mediated substrate recognition by an essential AAA+ protease Proc. Natl. Acad. Sci. USA 104 2007 6590 6595
22. Y. Zhang, and P. Zuber Requirement of the zinc-binding domain of ClpX for Spx proteolysis in Bacillus subtilis and effects of disulfide stress on ClpXP activity J. Bacteriol. 189 2007 7669 7680
23. T. Kaneko Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA110 DNA Res. 9 2002 189 197
24. G. Pessi, C.H. Ahrens, H. Rehrauer, A. Lindemann, F. Hauser, H.M. Fischer, and H. Hennecke Genome-wide transcript analysis of Bradyrhizobium japonicum bacteroids in soybean root nodules Mol. Plant-Microbe Interact. 20 2007 1353 1363
25. N. Delmotte An integrated proteomics and transcriptomics reference data set provides new insights into the Bradyrhizobium japonicum bacteroid metabolism in soybean root nodules Proteomics 10 2010 1391 1400
26. M.R. Maurizi, W.P. Clark, Y. Katayama, S. Rudikoff, J. Pumphrey, B. Bowers, and S. Gottesman Sequence and structure of ClpP, the proteolytic component of the ATP-dependent Clp protease of Escherichia coli J. Biol. Chem. 265 1990 12536 12545
27. Z. Maglica, K. Kolygo, and E. Weber-Ban Optimal efficiency of ClpAP and ClpXP chaperone-proteases is achieved by architectural symmetry Structure 17 2009 508 516
28. M.W. Thompson, S.K. Singh, and M.R. Maurizi Processive degradation of proteins by the ATP-dependent Clp protease from Escherichia coli. Requirement for the multiple array of active sites in ClpP but not ATP hydrolysis J. Biol. Chem. 269 1994 18209 18215
29. J. Kirstein, N. Moliere, D.A. Dougan, and K. Turgay Adapting the machine: adaptor proteins for Hsp100/Clp and AAA+ proteases Nat. Rev. Microbiol. 7 2009 589 599
30. E.U. Weber-Ban, B.G. Reid, A.D. Miranker, and A.L. Horwich Global unfolding of a substrate protein by the Hsp100 chaperone ClpA Nature 401 1999 90 93
31. A. Kuroda, K. Nomura, R. Ohtomo, J. Kato, T. Ikeda, N. Takiguchi, H. Ohtake, and A. Kornberg Role of inorganic polyphosphate in promoting ribosomal protein degradation by the Lon protease in E. coli Science 293 2001 705 708