CRC 1093 - Publications Project A2

Area A: Chemical Ligands and Methods

Publications by Prof. Dr. Markus Kaiser

Project A2 (Markus Kaiser):
Natural products as starting structures for the development of supramolecular ligands

S. Köcher, S. Resch, T. Kessenbrock, L. Schrapp, M. Ehrmann, M. Kaiser: From dolastatin 13 to cyanopeptolins, micropeptins, and lyngbyastatins: the chemical biology of Ahp-cyclodepsipeptides. Nat Prod Rep. 2019 Aug 27. doi: 10.1039/c9np00033j.

J. Bongard, A. L. Schmitz, A. Wolf, G. Zischinsky, M. Pieren, B. Schellhorn, K. Bravo-Rodriguez, J. Schillinger, U. Koch, P. Nussbaumer, B. Klebl, J. Steinmann, J. Buer, E. Sanchez-Garcia, M. Ehrmann, M. Kaiser: Chemical validation of DegS as a target for the development of antibiotics with a novel mode of action. ChemMedChem 10.1002/cmdc.201900193.

V. Halder, J. Oeljeklaus, G. Heilmann, J.H. Krahn, Y. Liu, Y. Xiong, M. Schlicht, J. Schillinger, B. Kracher, M. Ehrmann, E. Kombrink, F. Kaschani, M. Kaiser: Identification of the Natural Product Rotihibin A as a TOR Kinase Signaling Inhibitor by Unbiased Transcriptional Profiling. Chemistry. 2018 Aug 27;24(48):12500-12504. doi: 10.1002/chem.201802647.

E. Yilmaz, D. Bier, X. Guillory, J. Briels, Y.B. Ruiz-Blanco, E. Sanchez-Garcia, C. Ottmann, M. Kaiser: Mono- and Bivalent 14-3-3 Inhibitors for Characterizing Supramolecular "Lysine Wrapping" of Oligoethylene Glycol (OEG) Moieties in Proteins. Chemistry. 2018 Jun 20. doi: 10.1002/chem.201801074.

S. Koecher, J. Rey, J. Bongard, A. N. Tiaden, M. Meltzer, P. Richards, M. Ehrmann, M. Kaiser: Tailored Ahp-cyclodepsipeptides as potent non-covalent serine protease inhibitors. Angew. Chem. Int. Ed. 2017 May 17. doi: 10.1002/anie.201701771

J. van den Boom, M. Wolf, L. Weimann, N. Schulze, F. Li, F. Kaschani, A. Riemer, C. Zierhut, M. Kaiser, G. Iliakis, H. Funabiki, H. Meyer: VCP/p97 Extracts Sterically Trapped Ku70/80 Rings from DNA in Double-Strand Break Repair. Molecular Cell 2016 64, 189–198 October 6.

M. Ehrmann, F. Kaschani , M. Kaiser: Chemical proteomics versus Leishmaniasis. Chem. Biol. 2015, 22:309-310

J. van den Boom, M. Mamić, D. Baccelliere, S. Zweerink, F. Kaschani, S. Knauer, P. Bayer M. Kaiser: Peptidyl succinimidyl peptides as taspase 1 inhibitors. Chembiochem. 2014,Oct 13;15(15):2233-7.

C. Meesters, T. Mönig, J. Oeljeklaus, D. Krahn, C. S. Westfall, B. Hause, J. M. Jez, M. Kaiser, E. Kombrink: A chemical inhibitor of jasmonate signaling targets JAR1 in Arabidopsis thaliana. Nat Chem Biol. 2014 Aug 17.

S. C. Stolze, M. Meltzer, M. Ehrmann, M. Kaiser: Development of a solid-phase approach to the natural product class of Ahp containing cy-clodepsipeptides. Eur. J. Org. Chem. 2012, 1616-1625.

F. Kaschani, S. Nickel, B. Pandey, B. F. Cravatt, M. Kaiser, R. A. L. van der Hoorn: Selective inhibition of plant serine hydrolases by agrochemicals revealed by competitive ABPP. Bioorg. Med. Chem. 2012, 20, 597-600. 

F. Kaschani, J. Clerc, D. Krahn, D. Bier, T. N. Hong, C. Ottmann, S. Niessen, T. Colby, R. A. L. van der Hoorn, M. Kaiser: Identification of a selective, activity-based probe for GAPDHs. Angew. Chem. Int. Ed. 2012,51, 5230-5233.

L. Trübestein, A. Tennstaedt, T. Mönig, T. Krojer, F. Canellas, M. Kaiser, T. Clausen, M. Ehrmann: Substrate induced remodeling of the active site regulates HtrA1 activity. Nat. Struct. Mol. Biol. 2011, 18, 386-388.

I. Kolodziejek, J. C. Misas-Villamil, F. Kaschani, J. Clerc, C. Gu, D. Krahn, S. Nies-sen, M. Verdoes, L. I. Willems, H. S. Overkleeft, M. Kaiser, R. A.L. van der Hoorn: Proteasome activity imaging and profiling characterizes bacterial effector Syringolin A. Plant Physiol. 2011, 155, 477-489.

T. Clausen, M. Kaiser, R. Huber, M. Ehrmann: HTRA proteases: regulated proteolysis in protein quality control. Nat. Rev. Mol. Cell Biol. 2011, 12, 152-162.

M. Merdanovic, N. Mamant, M. Meltzer, S. Poepsel, A. Auckenthaler, R. Melgaard, P. Hauske, L. Nagel-Steger, A. R. Clarke, M. Kaiser, R. Huber, M. Ehrmann: Determinants of structural and functional plasticity of the widely conserved protease chaperone machine DegP. Nat. Struct. Mol. Biol. 2010, 17, 837-843.

S. C. Stolze, M. Meltzer, M. Ehrmann, M. Kaiser: Solid phase total synthesis of the 3-amino-6-hydroxy-2-piperidone (Ahp) cyclodepsipeptide and protease inhibitor Symplocamide A. Chem. Commun. 2010, 46, 8857–8859; 

P. Hauske, M. Meltzer, C. Ottmann, T. Krojer, T. Clausen, M. Ehrmann, M. Kaiser: Selectivity profiling of DegP sub-strates and inhibitors. Bioorg. Med. Chem. 2009, 17, 2920-2924. 

J. Clerc, B. I. Florea, M. Kraus, M. Groll, R. Huber, A. S. Bachmann, R. Dudler, C. Driessen, H. S. Overkleeft, M. Kaiser: Syringolin A selectively labels the 20S proteasome in murine EL4 and wildtype and bortezomib adapted leukemic cell lines. Chembiochem. 2009, 10, 2638-2643. 

J. Clerc, M. Groll, D. Nukic, A. S. Bachmann, R. Huber, B. Schellenberg, R. Dudler, M. Kaiser: Synthetic and structural studies on Syringolin A and B reveal critical determinants for se-lectivity and potency of proteasome inhibition. Proc. Natl. Acad. Sci. USA 2009, 106, 6507-6512.

Z. Wang, C. Gu, T. Colby, T. Shindo, R. Balamurugan, H. Waldmann, M. Kaiser, R. A. L. van der Hoorn: -lactone probes identify a papain-like peptide ligase in Arabidopsis thaliana. Nat. Chem. Biol. 2008, 4, 557-563.

M. Meltzer, S. Hasenbein, P. Hauske, N. Kucz, M. Merdanovic, S. Grau, A. Beil, D. Jones, T. Krojer, T. Clausen, M. Ehrmann, M. Kaiser: Allosteric activation of HtrA protease DegP by stress signals during bacterial protein quality control. Angew. Chem. Int. Ed. 2008, 47, 1332-1334.

M. Groll, B. Schellenberg, A. S. Bachmann*, C. R. Archer, R. Huber, T. K. Powell, S. Lindow, M. Kaiser*, R. Dudler*: A plant pathogen virulence factor inhibits the eukaryotic proteasome by a novel mechanism. Nature 2008, 452, 755-758.

 A. Nören-Müller, W. Wilk, K. Saxena, H. Schwalbe, M. Kaiser*, H. Waldmann*: Discovery of a New Class of Inhibitors of Mycobacterium tuberculosis Protein Tyrosine Phosphatase B by Biology-Oriented Synthesis. Angew. Chem. Int. Ed. 2008, 47, 5973-5977. 

More Publications Area A

  • Project A1
    Protein-recognition by supramolecular ligands from focused combinatorial libraries (Carsten Schmuck)
  • Project A2
  • Project A3
    Designed copolymers and molecular tweezers for protein surface recognition (Thomas Schrader)
  • Project A5
    Protein-specific nanoparticles for cellular uptake (Matthias Epple)
  • Project A6
    DNA-based nanocontainers for predesigned spatial confinement of proteins (Barbara Saccà)
  • Project A7
    Pareto-optimization of protein-surface targeting supramolecular binders with hetero-avidity (Daniel Hoffmann)
  • Project A8
    Exploring protein-recognition by supramolecular binders with MD and QM/MM methods (Elsa Sánchez-Garcia)
  • Project A9
    Raman spectroscopic monitoring of protein recognition by supramolecular ligands (Sebastian Schlücker)

Biological Targets Publications Area B

  • Project B1
    Supramolecular ligands modulate assembly and function of HtrA proteases (Michael Ehrmann)
  • Project B2
    Probing mechanisms of the Cdc48/p97 segregase with designed supramolecular ligands (Hemmo Meyer)
  • Project B3
    Supramolecular specific inhibitors of intestinal proteases against ischemia/reperfusion injury (Herbert de Groot)
  • Project B4
    Modulation of 14-3-3 protein-protein interactions by supramolecular chemistry (Christian Ottmann)
  • Project B5
    Dissection and modulation of (patho)biological Survivin functions by supramolecular ligands (Shirley Knauer)
  • Project B6
    Targeting centromer recruitment of mitotic regulators by supramolecular ligands (Andrea Musacchio)