Wisconsin Discovery Portal

Researcher: John Denu

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Areas of Expertise
  • Chromosome biology
  • Gene expression
  • Cell biology
  • Metabolism
  • Membrane biology
  • Cell signalling
  • Developmental biology
  • Structural biology
  • Computational and systems biology
  • Writing, reading and editing a molecular language/code
  • Linking metabolism with the epigenome
  • Sirtuins and reversible protein acetylation
  • Mechanism and biological function of reversible protein modifications involved in modulating signal transduction, chromatin dynamics, and gene activation
  • Major enzyme families that are involved in acetylation
Web Site John Denu's Department of Biomolecular Chemistry Website
Curriculum Vitae (CV)
Issued Patent(s)
  • 8,440,638 - Compositions and methods for modulating calcium flux, glucose homeostasis and apoptosis, issued May 2013.
  • 8,119,572 - Methods for determining protein binding specificity using peptide libraries, issued February 2012.
USPTO Published Applications
  • 20120040860 - Methods for determining protein binding specificity using peptide libraries, published February 2012.
  • 20080249059 - Compositions and methods for modulating calcium flux, glucose homeostasis and apoptosis, published October 2008.
  • 20070225246 - O-acetyl-ADP-ribose non-hydrolyzable analogs, published September 2007.
  • 20070105152 - Methods for determining protein binding specificity using peptide libraries, published May 2007.
Recent Publication(s)
  • Mechanisms and Dynamics of Protein Acetylation in Mitochondria. Baeza J, Smallegan MJ, Denu JM. Trends Biochem Sci. 2016 Mar;41(3):231-44. doi: 10.1016/j.tibs.2015.12.006. Epub 2016 Jan 25. Review.

  • Site-specific reactivity of nonenzymatic lysine acetylation. Baeza J, Smallegan MJ, Denu JM. ACS Chem Biol. 2015 Jan 16;10(1):122-8. doi: 10.1021/cb500848p.

  • Stoichiometry of site-specific lysine acetylation in an entire proteome. Baeza J, Dowell JA, Smallegan MJ, Fan J, Amador-Noguez D, Khan Z, Denu JM. J Biol Chem. 2014 Aug 1;289(31):21326-38. doi: 10.1074/jbc.M114.581843. Epub 2014 Jun 10.

  • Activation of the protein deacetylase SIRT6 by long-chain fatty acids and widespread deacylation by mammalian sirtuins. Feldman JL, Baeza J, Denu JM. J Biol Chem. 2013 Oct 25;288(43):31350-6. doi: 10.1074/jbc.C113.511261. Epub 2013 Sep 18.


View John Denu's publications here.
Recent Artistic Works
Collaboration
  • Colorado State University
  • Penn State University
  • NHLBI, Cardiovascular & Pulm Branch
  • University of Washington
  • Intra-University Collaboration
Research Tools
  • Organic Synthesis Hood
  • Beckman preparative HPLC
  • Shimadzu LC-2010 Analytical HPLC
  • Biospec-1601 UV-Vis spectrophotometer
  • Tissue Culture Hood
  • FPLC for protein purification
  • MicroCal ITC
Research Facilities
E-mail Address [email protected]
Phone Number 608-316-4341
Current University UW–Madison
Department Biomolecular Chemistry
Title Professor
Other Appointments
Address Line 1 2178 Discovery Building
Address Line 2 330 North Orchard Street
City Madison
State WI
Zip Code 53715
Bachelor's Degree B.S., UW–Madison, 1988
Master's Degree
PhD Ph.D., Texas A&M University, 1993
Other Degrees
Technologies Available for Licensing Modulating Cell Death and Proliferation

Methods for Determining Protein Binding Specificity Using Peptide Libraries

Methods for Identifying Agents That Regulate Chromosomal Stability, Gene Activation and Aging