title: The effect of various zinc binding groups on inhibition of histone deacetylases 1-11.
abstract: Histone deacetylases (HDACs) have the ability to cleave the acetyl groups of ε-N-acetylated lysine residues in a variety of proteins. Given that human cells contain thousands of different acetylated lysine residues, HDACS may regulate a wide variety of processes including some implicated in conditions such as cancer and neurodegenerative disorders. Herein we report the synthesis and in vitro biochemical profiling of a series of compounds, including known inhibitors as well as novel chemotypes, that incorporate putative new zinc binding domains. By evaluating the compound collection against all 11 recombinant human HDACs, we found that the trifluoromethyl ketone functionality provides potent inhibition of all four subclasses of the Zn(2+) -dependent HDACs. Potent inhibition was observed with two different scaffolds, demonstrating the efficiency of the trifluoromethyl ketone moiety as a zinc binding motif. Interestingly, we also identified silanediol as a zinc binding group with potential for future development of non-hydroxamate class I and class IIb HDAC inhibitors.
authors.affiliation: Department of Chemistry, Technical University of Denmark, Kemitorvet 207, Kongens Lyngby, 2800 (Denmark).
authors.forename: Andreas S
authors.initials: AS
authors.lastname: Madsen
authors.forename: Helle M E
authors.initials: HM
authors.lastname: Kristensen
authors.forename: Gyrithe
authors.initials: G
authors.lastname: Lanz
authors.forename: Christian A
authors.initials: CA
authors.lastname: Olsen
mesh_terms: D056572:Histone Deacetylase Inhibitors / Q000138:chemical synthesis / Q000737:chemistry* / Q000494:pharmacology*; D006655:Histone Deacetylases / Q000378:metabolism*; D006801:Humans; D015394:Molecular Structure; D011994:Recombinant Proteins / Q000378:metabolism; D013329:Structure-Activity Relationship; D015032:Zinc / Q000737:chemistry* / Q000378:metabolism / Q000494:pharmacology
chemical_list: D056572:Histone Deacetylase Inhibitors; D011994:Recombinant Proteins; D006655:Histone Deacetylases; D015032:Zinc
keywords: epigenetics; histone deacetylases; inhibitors; silanediols; trifluoromethyl ketones; zinc