Substrate occupancy at the onset of oligomeric transitions of DegP

Structure

Volumn 22, Issue 2, 2014, Pages 281-290

  Thompson, Natalie J ^a,b   Merdanovic, Melisa ^c   Ehrmann, Michael ^c,d   Van Duijn, Esther ^a,b   Heck, Albert J R ^a,b  

^a UTRECHT UNIVERSITY   (Netherlands)

^b NETHERLANDS PROTEOMICS CENTRE   (Netherlands)

^c UNIVERSITY OF DUISBURG ESSEN   (Germany)

^d CARDIFF UNIVERSITY   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

CHAPERONE; PROTEIN DEGP; PROTEINASE; UNCLASSIFIED DRUG; LIGAND; OLIGOMER; PEPTIDE;

ARTICLE; CONFORMATIONAL TRANSITION; ENZYME SUBSTRATE; ENZYME SUBSTRATE COMPLEX; LIGAND BINDING; MASS SPECTROMETRY; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN QUATERNARY STRUCTURE; PROTEIN SECONDARY STRUCTURE; AMINO ACID SEQUENCE; BINDING SITE; CARBOXY TERMINAL SEQUENCE; CONTROLLED STUDY; MOLECULAR WEIGHT; OLIGOMERIZATION; PROTEIN DEGRADATION;

AMINO ACID SEQUENCE; ESCHERICHIA COLI; HEAT-SHOCK PROTEINS; LIGANDS; MASS SPECTROMETRY; MOLECULAR SEQUENCE DATA; PEPTIDES; PERIPLASMIC PROTEINS; PROTEIN BINDING; PROTEIN FOLDING; PROTEIN STRUCTURE, QUATERNARY; SERINE ENDOPEPTIDASES; SUBSTRATE SPECIFICITY;

EID: 84893778093     PISSN: 09692126     EISSN: 18784186     Source Type: Journal    
DOI: 10.1016/j.str.2013.11.010     Document Type: Article

References (33)

1. T. Clausen, M. Kaiser, R. Huber, and M. Ehrmann HTRA proteases: regulated proteolysis in protein quality control Nat. Rev. Mol. Cell Biol. 12 2011 152 162
2. S. Hasenbein, M. Meltzer, P. Hauske, M. Kaiser, R. Huber, T. Clausen, and M. Ehrmann Conversion of a regulatory into a degradative protease J. Mol. Biol. 397 2010 957 966
3. P. Hauske, M. Meltzer, C. Ottmann, T. Krojer, T. Clausen, M. Ehrmann, and M. Kaiser Selectivity profiling of DegP substrates and inhibitors Bioorg. Med. Chem. 17 2009 2920 2924
4. D. Huber, and B. Bukau DegP: a Protein "Death Star" Structure 16 2008 989 990
5. J. Iwanczyk, D. Damjanovic, J. Kooistra, V. Leong, A. Jomaa, R. Ghirlando, and J. Ortega Role of the PDZ domains in Escherichia coli DegP protein J. Bacteriol. 189 2007 3176 3186
6. J. Iwanczyk, V. Leong, and J. Ortega Factors defining the functional oligomeric state of Escherichia coli DegP protease PLoS ONE 6 2011 e18944
7. J.S. Jiang, X.F. Zhang, Y. Chen, Y. Wu, Z.H. Zhou, Z. Chang, and S.F. Sui Activation of DegP chaperone-protease via formation of large cage-like oligomers upon binding to substrate proteins Proc. Natl. Acad. Sci. USA 105 2008 11939 11944
8. A. Jomaa, D. Damjanovic, V. Leong, R. Ghirlando, J. Iwanczyk, and J. Ortega The inner cavity of Escherichia coli DegP protein is not essential for molecular chaperone and proteolytic activity J. Bacteriol. 189 2007 706 716
9. C.H. Jones, P. Dexter, A.K. Evans, C. Liu, S.J. Hultgren, and D.E. Hruby Escherichia coli DegP protease cleaves between paired hydrophobic residues in a natural substrate: the PapA pilin J. Bacteriol. 184 2002 5762 5771
10. D.Y. Kim, and K.K. Kim Structure and function of HtrA family proteins, the key players in protein quality control J. Biochem. Mol. Biol. 38 2005 266 274
11. S. Kim, and R.T. Sauer Cage assembly of DegP protease is not required for substrate-dependent regulation of proteolytic activity or high-temperature cell survival Proc. Natl. Acad. Sci. USA 109 2012 7263 7268
12. S. Kim, R.A. Grant, and R.T. Sauer Covalent linkage of distinct substrate degrons controls assembly and disassembly of DegP proteolytic cages Cell 145 2011 67 78
13. T. Krojer, M. Garrido-Franco, R. Huber, M. Ehrmann, and T. Clausen Crystal structure of DegP (HtrA) reveals a new protease-chaperone machine Nature 416 2002 455 459
14. T. Krojer, K. Pangerl, J. Kurt, J. Sawa, C. Stingl, K. Mechtler, R. Huber, M. Ehrmann, and T. Clausen Interplay of PDZ and protease domain of DegP ensures efficient elimination of misfolded proteins Proc. Natl. Acad. Sci. USA 105 2008 7702 7707
15. T. Krojer, J. Sawa, E. Schäfer, H.R. Saibil, M. Ehrmann, and T. Clausen Structural basis for the regulated protease and chaperone function of DegP Nature 453 2008 885 890
16. T. Krojer, J. Sawa, R. Huber, and T. Clausen HtrA proteases have a conserved activation mechanism that can be triggered by distinct molecular cues Nat. Struct. Mol. Biol. 17 2010 844 852
17. J.A. Loo Electrospray ionization mass spectrometry: a technology for studying noncovalent macromolecular complexes Int. J. Mass Spectrom. 200 2000 175 186
18. H. Malet, F. Canellas, J. Sawa, J. Yan, K. Thalassinos, M. Ehrmann, T. Clausen, and H.R. Saibil Newly folded substrates inside the molecular cage of the HtrA chaperone DegQ Nat. Struct. Mol. Biol. 19 2012 152 157
19. M. Meltzer, S. Hasenbein, P. Hauske, N. Kucz, M. Merdanovic, S. Grau, A. Beil, D. Jones, T. Krojer, and T. Clausen et al. Allosteiric activation of HtrA protease DegP by stress signals during bacterial protein quality control Angew. Chem. Int. Ed. 47 2008 1332 1334
20. M. Meltzer, S. Hasenbein, N. Mamant, M. Merdanovic, S. Poepsel, P. Hauske, M. Kaiser, R. Huber, T. Krojer, T. Clausen, and M. Ehrmann Structure, function and regulation of the conserved serine proteases DegP and DegS of Escherichia coli Res. Microbiol. 160 2009 660 666
21. M. Merdanovic, N. Mamant, M. Meltzer, S. Poepsel, A. Auckenthaler, R. Melgaard, P. Hauske, L. Nagel-Steger, A.R. Clarke, and M. Kaiser et al. Determinants of structural and functional plasticity of a widely conserved protease chaperone complex Nat. Struct. Mol. Biol. 17 2010 837 843
22. M. Merdanovic, T. Clausen, M. Kaiser, R. Huber, and M. Ehrmann Protein quality control in the bacterial periplasm Annu. Rev. Microbiol. 65 2011 149 168
23. J. Ortega, J. Iwanczyk, and A. Jomaa Escherichia coli DegP: a structure-driven functional model J. Bacteriol. 191 2009 4705 4713
24. J. Sawa, A. Heuck, M. Ehrmann, and T. Clausen Molecular transformers in the cell: lessons learned from the DegP protease-chaperone Curr. Opin. Struct. Biol. 20 2010 253 258
25. Q.T. Shen, X.C. Bai, L.F. Chang, Y. Wu, H.W. Wang, and S.F. Sui Bowl-shaped oligomeric structures on membranes as DegP's new functional forms in protein quality control Proc. Natl. Acad. Sci. USA 106 2009 4858 4863
26. G.K. Shoemaker, E. van Duijn, S.E. Crawford, C. Uetrecht, M. Baclayon, W.H. Roos, G.J.L. Wuite, M.K. Estes, B.V.V. Prasad, and A.J.R. Heck Norwalk virus assembly and stability monitored by mass spectrometry Mol. Cell. Proteomics 9 2010 1742 1751
27. C. Spiess, A. Beil, and M. Ehrmann A temperature-dependent switch from chaperone to protease in a widely conserved heat shock protein Cell 97 1999 339 347
28. O. Subrini, and J.M. Betton Assemblies of DegP underlie its dual chaperone and protease function FEMS Microbiol. Lett. 296 2009 143 148
29. N. Tahallah, M. Pinkse, C.S. Maier, and A.J.R. Heck The effect of the source pressure on the abundance of ions of noncovalent protein assemblies in an electrospray ionization orthogonal time-of-flight instrument Rapid Commun. Mass Spectrom. 15 2001 596 601
30. J. Tyedmers, A. Mogk, and B. Bukau Cellular strategies for controlling protein aggregation Nat. Rev. Mol. Cell Biol. 11 2010 777 788
31. B. van Breukelen, A. Barendregt, A.J.R. Heck, and R.H.H. van den Heuvel Resolving stoichiometries and oligomeric states of glutamate synthase protein complexes with curve fitting and simulation of electrospray mass spectra Rapid Commun. Mass Spectrom. 20 2006 2490 2496
32. E. van Duijn, P.J. Bakkes, R.M.A. Heeren, R.H. van den Heuvel, H. van Heerikhuizen, S.M. van der Vies, and A.J.R. Heck Monitoring macromolecular complexes involved in the chaperonin-assisted protein folding cycle by mass spectrometry Nat. Methods 2 2005 371 376
33. E. van Duijn, I.M. Barbu, A. Barendregt, M.M. Jore, B. Wiedenheft, M. Lundgren, E.R. Westra, S.J.J. Brouns, J.A. Doudna, J. van der Oost, and A.J. Heck Native tandem and ion mobility mass spectrometry highlight structural and modular similarities in clustered-regularly-interspaced shot-palindromic-repeats (CRISPR)-associated protein complexes from Escherichia coli and Pseudomonas aeruginosa Mol. Cell. Proteomics 11 2012 1430 1441