Histone deacetylase 9

Function

Responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Represses MEF2-dependent transcription.

Classification

Family (Pfam)

PF12203 HDAC4_Gln, PF00850 Hist_deacetyl

InterPro

HDAC4/5/7/9, HDACs, His_deacetylse_dom, His_deacetylse_dom_sf, Hist_deacetylase_Gln_rich_N, Ureohydrolase_dom_sf

Functional cluster

Homeobox & Zinc-Finger Transcription Factors

Experimental structures · PDB · 2

• 8Q9N X-ray 1.51A
• 8Q9R X-ray 2.25A

A predicted model is available from AlphaFold.

Gene Ontology · 32

• GO:0005737 cytoplasm
• GO:0000118 histone deacetylase complex
• GO:0035097 histone methyltransferase complex
• GO:0005654 nucleoplasm
• GO:0005634 nucleus
• GO:0005667 transcription regulator complex
• GO:0140297 DNA-binding transcription factor binding
• GO:0004407 histone deacetylase activity
• GO:0042826 histone deacetylase binding
• GO:0031078 histone H3K14 deacetylase activity, hydrolytic mechanism
• GO:0032129 histone H3K9 deacetylase activity, hydrolytic mechanism
• GO:0034739 histone H4K16 deacetylase activity, hydrolytic mechanism
• GO:0046872 metal ion binding
• GO:0005080 protein kinase C binding
• GO:0033558 protein lysine deacetylase activity
• GO:0061629 RNA polymerase II-specific DNA-binding transcription factor binding
• GO:0003714 transcription corepressor activity
• GO:0042113 B cell activation
• GO:0030183 B cell differentiation
• GO:0032869 cellular response to insulin stimulus
• GO:0042632 cholesterol homeostasis
• GO:0006351 DNA-templated transcription
• GO:0040029 epigenetic regulation of gene expression
• GO:0007507 heart development
• GO:0006954 inflammatory response
• GO:0001818 negative regulation of cytokine production
• GO:0045892 negative regulation of DNA-templated transcription
• GO:0045814 negative regulation of gene expression, epigenetic
• GO:0000122 negative regulation of transcription by RNA polymerase II
• GO:0090050 positive regulation of cell migration involved in sprouting angiogenesis
• GO:0048742 regulation of skeletal muscle fiber development
• GO:0051153 regulation of striated muscle cell differentiation

Disease associations

• auriculocondylar syndrome 4 MONDO:0957543

Drugs targeting this protein · 10

• ABEXINOSTAT inhibitor
• QUISINOSTAT inhibitor
• TACEDINALINE inhibitor
• ENTINOSTAT inhibitor
• ROMIDEPSIN inhibitor
• PANOBINOSTAT LACTATE inhibitor
• FIMEPINOSTAT inhibitor
• BELINOSTAT inhibitor
• CUDC-101 inhibitor
• GIVINOSTAT HYDROCHLORIDE inhibitor

Related proteins · sequence + function similarity

• Histone deacetylase 5 0.96
• Histone deacetylase 5 0.96
• Histone deacetylase 5 0.95
• Histone deacetylase 5 0.95
• Histone deacetylase 4 0.95
• Histone deacetylase 4 0.94
• Histone deacetylase 4 0.94
• Histone deacetylase 4 0.93
• Histone deacetylase 9 0.87
• Histone deacetylase 9-B 0.86
• Histone deacetylase 9 0.86
• Histone deacetylase 9 0.83

Co-cited proteins · studied together in the literature

• Transforming growth factor beta-2 proprotein 1 shared papers
• Histone deacetylase 9 2 shared papers
• Myocyte-specific enhancer factor 2C 2 shared papers
• Histone deacetylase 4 3 shared papers
• Myocyte-specific enhancer factor 2D homolog 1 shared papers
• Histone deacetylase 7 2 shared papers
• Myocyte-specific enhancer factor 2A homolog 1 shared papers
• Myocyte-specific enhancer factor 2A 1 shared papers
• Histone deacetylase 9 1 shared papers
• Mitogen-activated protein kinase 10 1 shared papers
• Transcription factor ETV6 1 shared papers
• Myocyte-specific enhancer factor 2D 1 shared papers

Literature · 18 cited papers

• New locus underlying auriculocondylar syndrome (ARCND): 430 kb duplication involving TWIST1 regulatory elements. J. Med. Genet. · 2022
• Exome sequencing identifies frequent mutation of the SWI/SNF complex gene PBRM1 in renal carcinoma. Nature · 2011
• Protein kinase C-related kinase targets nuclear localization signals in a subset of class IIa histone deacetylases. FEBS Lett. · 2010
• Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. Sci. Signal. · 2009
• FOXP3 interactions with histone acetyltransferase and class II histone deacetylases are required for repression. Proc. Natl. Acad. Sci. U.S.A. · 2007
• Neuroprotection by histone deacetylase-related protein. Mol. Cell. Biol. · 2006
• The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Genome Res. · 2004
• Complete sequencing and characterization of 21,243 full-length human cDNAs. Nat. Genet. · 2004
• The DNA sequence of human chromosome 7. Nature · 2003
• Molecular characterization of a familial translocation implicates disruption of HDAC9 and possible position effect on TGFbeta2 in the pathogenesis of Peters' anomaly. Genomics · 2003
• The histone deacetylase 9 gene encodes multiple protein isoforms. J. Biol. Chem. · 2003
• The SUMO E3 ligase RanBP2 promotes modification of the HDAC4 deacetylase. EMBO J. · 2002
• … and 6 more in the literature graph