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Molecular evolution of the histone deacetylase family: Functional implications of phylogenetic analysis
KTH, Superseded Departments, Biotechnology. Walther Cancer Center, Dept. of Chemistry and Biochemistry, University of Notre Dame, USA.
2004 (English)In: Journal of Molecular Biology, Vol. 338, no 1, 17-31 p.Article in journal (Refereed) Published
Abstract [en]

Histone deacetylases (HDACs) modify core histones and participate in large regulatory complexes that both suppress and enhance transcription. Recent studies indicate that some HDACs can act on non-histone proteins as well. Interest in these enzymes is growing because HDAC inhibitors appear to be promising therapeutic agents against cancer and a variety of other diseases. Thus far, 11 members of the HDAC family have been identified in humans, but few have been characterized in detail. To better define the biological function of these proteins, make maximal use of studies performed in other systems, and assist in drug development efforts, we have performed a phylogenetic analysis of all HDAC-related proteins in all fully sequenced free-living organisms. Previous analyses have divided non-sirtuin HDACs into two groups, classes 1 and 2. We find that HDACs can be divided into three equally distinct groups: class 1, class 2, and a third class consisting of proteins related to the recently identified human HDAC11 gene. We term this novel group "class 4" to distinguish it from the unrelated "class 3" sirtuin deacetylases. Analysis of gene duplication events indicates that the common ancestor of metazoan organisms contained two class 1, two class 2, and a single class 4 HDAC. Examination of HDAC characteristics in light of these evolutionary relationships leads to functional predictions, among them that self-association is common among HDAC proteins. All three HDAC classes (including class 4) exist in eubacteria. Phylogenetic analysis of bacterial HDAC relatives suggests that all three HDAC classes precede the evolution of histone proteins and raises the possibility that the primary activity of some "histone deacetylase" enzymes is directed against non-histone substrates.

Place, publisher, year, edition, pages
2004. Vol. 338, no 1, 17-31 p.
Keyword [en]
Chromatin remodeling, Drug development, Gene duplication, HDAC, histone deacetylase, Multigene family, Transcription regulation, histone deacetylase, sirtuin, amino acid sequence, article, enzyme active site, enzyme activity, enzyme structure, Eubacterium, gene sequence, molecular evolution, nucleotide sequence, phylogenetic tree, phylogeny, priority journal, prokaryote, protein family, protein function, sequence alignment, sequence homology, Eukaryotic Cells, Evolution, Molecular, Genome, Histone Deacetylases, Histones, Prokaryotic Cells, Bacteria (microorganisms), Metazoa
National Category
Biochemistry and Molecular Biology
URN: urn:nbn:se:kth:diva-157456DOI: 10.1016/j.jmb.2004.02.006ISI: 000220762600003ScopusID: 2-s2.0-1842578986OAI: diva2:770596

QC 20141211

Available from: 2014-12-11 Created: 2014-12-09 Last updated: 2014-12-11Bibliographically approved

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