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Aliases for HDAC9 Gene

Aliases for HDAC9 Gene

  • Histone Deacetylase 9 2 3
  • HDAC7B 3 4 6
  • MITR 3 4 6
  • Histone Deacetylase 7B 3 4
  • EC 3.5.1.98 4 64
  • KIAA0744 4 6
  • HDAC7 3 4
  • HD7b 3 4
  • HDRP 3 4
  • HD7 3 4
  • HD9 3 4
  • MEF-2 Interacting Transcription Repressor (MITR) Protein 3
  • MEF2-Interacting Transcription Repressor MITR 4
  • Histone Deacetylase 4/5-Related Protein 3
  • Histone Deacetylase-Related Protein 4
  • HDAC9FL 3
  • HDAC9B 3
  • HDAC 3

External Ids for HDAC9 Gene

Summaries for HDAC9 Gene

Entrez Gene Summary for HDAC9 Gene

  • Histones play a critical role in transcriptional regulation, cell cycle progression, and developmental events. Histone acetylation/deacetylation alters chromosome structure and affects transcription factor access to DNA. The protein encoded by this gene has sequence homology to members of the histone deacetylase family. This gene is orthologous to the Xenopus and mouse MITR genes. The MITR protein lacks the histone deacetylase catalytic domain. It represses MEF2 activity through recruitment of multicomponent corepressor complexes that include CtBP and HDACs. This encoded protein may play a role in hematopoiesis. Multiple alternatively spliced transcripts have been described for this gene but the full-length nature of some of them has not been determined. [provided by RefSeq, Jul 2008]

GeneCards Summary for HDAC9 Gene

HDAC9 (Histone Deacetylase 9) is a Protein Coding gene. Diseases associated with HDAC9 include hiv-1 and peters anomaly. Among its related pathways are Signaling by GPCR and Disease. GO annotations related to this gene include transcription factor binding and histone deacetylase binding. An important paralog of this gene is HDAC10.

UniProtKB/Swiss-Prot for HDAC9 Gene

  • 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

  • Isoform 3 lacks active site residues and therefore is catalytically inactive. Represses MEF2-dependent transcription by recruiting HDAC1 and/or HDAC3. Seems to inhibit skeletal myogenesis and to be involved in heart development. Protects neurons from apoptosis, both by inhibiting JUN phosphorylation by MAPK10 and by repressing JUN transcription via HDAC1 recruitment to JUN promoter

Tocris Summary for HDAC9 Gene

  • Histone Deacetylases (HDACs) are a group of enzymes closely related to sirtuins. They catalyze the removal of acetyl groups from lysine residues in histones and non-histone proteins, resulting in transcriptional repression. In general, they do not act autonomously but as components of large multiprotein complexes, such as pRb-E2F and mSin3A, that mediate important transcription regulatory pathways. There are three classes of HDACs; classes 1, 2 and 4, which are closely related Zn2+-dependent enzymes. HDACs are ubiquitously expressed and they can exist in the nucleus or cytosol. Their subcellular localization is effected by protein-protein interactions (for example HDAC-14.3.3 complexes are retained in the cytosol) and by the class to which they belong (class 1 HDACs are predominantly nuclear whilst class 2 HDACs shuttle between the nucleus and cytosol). HDACs have a role in cell growth arrest, differentiation and death and this has led to substantial interest in HDAC inhibitors as possible antineoplastic agents.

Gene Wiki entry for HDAC9 Gene

No data available for PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HDAC9 Gene

Genomics for HDAC9 Gene

Genomic Location for HDAC9 Gene

Start:
18,086,942 bp from pter
End:
19,002,416 bp from pter
Size:
915,475 bases
Orientation:
Plus strand

Genomic View for HDAC9 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for HDAC9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HDAC9 Gene

Regulatory Elements for HDAC9 Gene

Transcription factor binding sites by QIAGEN in the HDAC9 gene promoter:

Proteins for HDAC9 Gene

  • Protein details for HDAC9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UKV0-HDAC9_HUMAN
    Recommended name:
    Histone deacetylase 9
    Protein Accession:
    Q9UKV0
    Secondary Accessions:
    • A7E2F3
    • B7Z4I4
    • B7Z917
    • B7Z928
    • B7Z940
    • C9JS87
    • E7EX34
    • F8W9E0
    • O94845
    • O95028
    • Q2M2R6
    • Q86SL1
    • Q86US3

    Protein attributes for HDAC9 Gene

    Size:
    1011 amino acids
    Molecular mass:
    111297 Da
    Quaternary structure:
    • Homodimer. Interacts with CTBP1. The phosphorylated form interacts with 14-3-3 (By similarity). Interacts with HDAC1 and HDAC3, and probably with HDAC4 and HDAC5. Interacts with MEF2, MAPK10, ETV6, NCOR1 and BCL6. Interacts with FOXP3 in the absence of T-cell stimulation.
    SequenceCaution:
    • Sequence=BAA34464.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for HDAC9 Gene

neXtProt entry for HDAC9 Gene

Proteomics data for HDAC9 Gene at MOPED

Post-translational modifications for HDAC9 Gene

  • Phosphorylated on Ser-220 and Ser-450; which promotes 14-3-3-binding, impairs interaction with MEF2, and antagonizes antimyogenic activity. Phosphorylated on Ser-240; which impairs nuclear accumulation (By similarity). Isoform 7 is phosphorylated on Tyr-1010. Phosphorylated by the PKC kinases PKN1 and PKN2, impairing nuclear import.
  • Sumoylated.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Domains for HDAC9 Gene

UniProtKB/Swiss-Prot:

HDAC9_HUMAN
Family:
  • Belongs to the histone deacetylase family. HD type 2 subfamily.:
    • Q9UKV0
genes like me logo Genes that share domains with HDAC9: view

No data available for Gene Families for HDAC9 Gene

Function for HDAC9 Gene

Molecular function for HDAC9 Gene

UniProtKB/Swiss-Prot CatalyticActivity: Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone
UniProtKB/Swiss-Prot EnzymeRegulation: Inhibited by Trichostatin A (TSA) and suberoylanilide hydroxamic acid.
UniProtKB/Swiss-Prot 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
UniProtKB/Swiss-Prot Function: Isoform 3 lacks active site residues and therefore is catalytically inactive. Represses MEF2-dependent transcription by recruiting HDAC1 and/or HDAC3. Seems to inhibit skeletal myogenesis and to be involved in heart development. Protects neurons from apoptosis, both by inhibiting JUN phosphorylation by MAPK10 and by repressing JUN transcription via HDAC1 recruitment to JUN promoter

Enzyme Numbers (IUBMB) for HDAC9 Gene

Gene Ontology (GO) - Molecular Function for HDAC9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003714 transcription corepressor activity ISS --
GO:0004407 NOT histone deacetylase activity IDA 10655483
GO:0005080 protein kinase C binding IPI 20188095
GO:0005515 protein binding IPI 12590135
GO:0008134 transcription factor binding IPI 10748098
genes like me logo Genes that share ontologies with HDAC9: view
genes like me logo Genes that share phenotypes with HDAC9: view

miRNA for HDAC9 Gene

miRTarBase miRNAs that target HDAC9

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for HDAC9 Gene

Localization for HDAC9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HDAC9 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for HDAC9 Gene COMPARTMENTS Subcellular localization image for HDAC9 gene
Compartment Confidence
nucleus 5
cytoskeleton 2
extracellular 2
mitochondrion 2
cytosol 1
endoplasmic reticulum 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for HDAC9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000118 histone deacetylase complex TAS 12711221
GO:0005634 nucleus IDA 12590135
GO:0005654 nucleoplasm TAS --
GO:0005667 transcription factor complex IDA 15567413
GO:0005737 cytoplasm TAS 12711221
genes like me logo Genes that share ontologies with HDAC9: view

Pathways for HDAC9 Gene

genes like me logo Genes that share pathways with HDAC9: view

Gene Ontology (GO) - Biological Process for HDAC9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IDA 10655483
GO:0006351 transcription, DNA-templated IEA --
GO:0006954 inflammatory response TAS 12711221
GO:0007219 Notch signaling pathway TAS --
GO:0007507 heart development ISS --
genes like me logo Genes that share ontologies with HDAC9: view

Compounds for HDAC9 Gene

(29) ApexBio Compounds for HDAC9 Gene

Compound Action Cas Number
AR-42 (OSU-HDAC42) Pan-HDAC inhibitor [935881-37-1]
Belinostat (PXD101) Novel and potent hydroxamate-type HDAC inhibitor [414864-00-9]
CI994 (Tacedinaline) HDAC1 and 3 inhibitor [112522-64-2]
CUDC-101 Multitargeted HDAC inhibitor [1012054-59-9]
CUDC-907 dual PI3K and HDAC inhibitor [1339928-25-4]
Droxinostat Selective HDAC inhibitor [99873-43-5]
Entinostat (MS-275,SNDX-275) Entinostat inhibits HDAC1 and HDAC3 but not HDAC8 [209783-80-2]
ITF2357 (Givinostat) HDAC inhibitor, inhibits class I and class II HDACs [732302-99-7]
JNJ-26481585 Potent pan-HDAC inhibitor [875320-29-9]
LAQ824 (NVP-LAQ824,Dacinostat) Novel and potent HDAC inhibitor [404951-53-7]
M344 Cell-permeable HDAC inhibitor [251456-60-7]
MC1568 Selective class IIa HDAC inhibitor [852475-26-4]
Mocetinostat (MGCD0103, MG0103) Class I selective HDAC inhibitor [726169-73-9]
Panobinostat (LBH589) Broad spectrum HDAC inhibitor, inhibits HDAC1-11 [404950-80-7]
PCI-24781 (CRA-024781) Novel pan-HDAC inhibitor [783355-60-2]
PCI-34051 Potent, specific HDAC8 inhibitor [950762-95-5]
Pracinostat (SB939) Pan-HDAC inhibitor, inhibits all HDAC isozymes except HDAC6 and HDAC7 [929016-96-6]
Resminostat (RAS2410) Potent inhibitor of HDAC classes I and II [864814-88-0]
RG2833 Brain-penetrant HDAC inhibitor [1215493-56-3]
RGFP966 Specific HDAC3 inhibitor [1396841-57-8]
Rocilinostat (ACY-1215) Selective HDAC6 inhibitor [1316214-52-4]
Romidepsin (FK228, depsipeptide) Potent HDAC1 and HDAC2 inhibitor [128517-07-7]
Scriptaid Cell-permeable HDAC inhibitor [287383-59-9]
Trichostatin A (TSA) Cell-permeable, non-competitive, and reversible HDAC inhibitor [58880-19-6]
Tubacin Selective HDAC6 inhibitor [1350555-93-9]
Tubastatin A Potent and selective HDAC6 inhibitor [1252003-15-8]
Tubastatin A HCl Potent and selective HDAC6 inhibitor [1310693-92-5]
Valproic acid sodium salt HDAC inhibitor [1069-66-5]
Vorinostat (SAHA, MK0683) Class I and II HDAC inhibitor [149647-78-9]

(5) Tocris Compounds for HDAC9 Gene

Compound Action Cas Number
LMK 235 Selective HDAC4/HDAC5 inhibitor [1418033-25-6]
Sodium 4-Phenylbutyrate Histone deacetylase inhibitor [1716-12-7]
TCS HDAC6 20b Selective HDAC6 inhibitor [956154-63-5]
Trichostatin A Histone deacetylase inhibitor [58880-19-6]
Tubacin HDAC6 inhibitor; inhibits alpha-tubulin deacetylation [1350555-93-9]

(1) HMDB Compounds for HDAC9 Gene

Compound Synonyms Cas Number PubMed IDs
Butyric acid
  • 1-Butyrate
107-92-6

(1) Drugbank Compounds for HDAC9 Gene

Compound Synonyms Cas Number Type Actions PubMed IDs
Valproic Acid
  • 2-Propylpentanoic Acid
99-66-1 target inhibitor

(110) Novoseek inferred chemical compound relationships for HDAC9 Gene

Compound -log(P) Hits PubMed IDs
suberoylanilide hydroxamic acid 96.8 113
depsipeptide 92.9 89
apicidin 91.2 30
lbh-589 90.3 23
ms 275 89 8
genes like me logo Genes that share compounds with HDAC9: view

Transcripts for HDAC9 Gene

Unigene Clusters for HDAC9 Gene

Histone deacetylase 9:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for HDAC9 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^
SP1: - - -
SP2: - -
SP3:

ExUns: 24 ^ 25 ^ 26 ^ 27
SP1:
SP2:
SP3:

Relevant External Links for HDAC9 Gene

GeneLoc Exon Structure for
HDAC9
ECgene alternative splicing isoforms for
HDAC9

Expression for HDAC9 Gene

mRNA expression in normal human tissues for HDAC9 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for HDAC9 Gene

SOURCE GeneReport for Unigene cluster for HDAC9 Gene Hs.196054

mRNA Expression by UniProt/SwissProt for HDAC9 Gene

Q9UKV0-HDAC9_HUMAN
Tissue specificity: Broadly expressed, with highest levels in brain, heart, muscle and testis. Isoform 3 is present in human bladder carcinoma cells (at protein level).
genes like me logo Genes that share expressions with HDAC9: view

Orthologs for HDAC9 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for HDAC9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HDAC9 36
  • 99.69 (n)
  • 99.72 (a)
HDAC9 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia HDAC9 36
  • 94.26 (n)
  • 96.72 (a)
HDAC9 37
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia HDAC9 36
  • 95.07 (n)
  • 98.03 (a)
HDAC9 37
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Hdac9 36
  • 89.74 (n)
  • 92.4 (a)
Hdac9 16
Hdac9 37
  • 93 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia HDAC9 37
  • 79 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia HDAC9 37
  • 84 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Hdac9 36
  • 89.94 (n)
  • 92.5 (a)
chicken
(Gallus gallus)
Aves HDAC9 36
  • 81.69 (n)
  • 84.79 (a)
HDAC9 37
  • 79 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 37
  • 82 (a)
OneToMany
-- 37
  • 77 (a)
OneToMany
-- 37
  • 75 (a)
OneToMany
African clawed frog
(Xenopus laevis)
Amphibia hdac9-A 36
zebrafish
(Danio rerio)
Actinopterygii hdac9 36
hdac9b 37
  • 54 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta HDAC4 37
  • 32 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea hda-4 37
  • 34 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes HDA1 37
  • 10 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 53 (a)
ManyToMany
CSA.5129 37
  • 32 (a)
ManyToMany
Species with no ortholog for HDAC9:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for HDAC9 Gene

ENSEMBL:
Gene Tree for HDAC9 (if available)
TreeFam:
Gene Tree for HDAC9 (if available)

Paralogs for HDAC9 Gene

Paralogs for HDAC9 Gene

genes like me logo Genes that share paralogs with HDAC9: view

Variants for HDAC9 Gene

Sequence variations from dbSNP and Humsavar for HDAC9 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type MAF
rs431 -- 18,610,928(+) TTTGG(A/G)GGCCT intron-variant
rs432 -- 18,998,709(-) TCTCA(C/T)TCAGA utr-variant-3-prime
rs433 -- 18,998,696(-) AACTG(C/T)GAGCA utr-variant-3-prime
rs434 -- 18,998,643(-) AAACT(A/C)CCCTT utr-variant-3-prime
rs109251 -- 18,230,872(-) TTATG(A/G)AGTCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for HDAC9 Gene

Variant ID Type Subtype PubMed ID
nsv887808 CNV Gain 21882294
nsv887809 CNV Loss 21882294
esv2734072 CNV Deletion 23290073
nsv366882 CNV Loss 16902084
esv999263 CNV Deletion 20482838
esv2734074 CNV Deletion 23290073
nsv887810 CNV Gain 21882294
nsv830914 CNV Gain 17160897
esv2476785 CNV Deletion 19546169
nsv830916 CNV Gain 17160897
nsv482942 CNV Gain 15286789
esv270583 CNV Insertion 20981092
nsv887811 CNV Loss 21882294
esv271208 CNV Insertion 20981092
esv32771 CNV Gain 17666407
esv272796 CNV Insertion 20981092
esv269171 CNV Insertion 20981092
esv2442723 CNV Deletion 19546169
esv2676378 CNV Deletion 23128226
nsv887812 CNV Loss 21882294
esv2582410 CNV Deletion 19546169
nsv5648 CNV Insertion 18451855
nsv516893 CNV Loss 19592680
nsv830917 CNV Gain 17160897
esv2664987 CNV Deletion 23128226
esv270803 CNV Insertion 20981092
esv29862 CNV Loss 19812545
nsv887813 CNV Gain 21882294
nsv483058 CNV Gain 15286789
nsv887814 CNV Loss 21882294
dgv2068e1 CNV Complex 17122850
esv2734075 CNV Deletion 23290073
esv2734076 CNV Deletion 23290073
esv2660622 CNV Deletion 23128226
esv2668991 CNV Deletion 23128226
esv2734077 CNV Deletion 23290073
nsv8065 CNV Loss 18304495
nsv528759 CNV Loss 19592680
nsv523497 CNV Loss 19592680
dgv7225n71 CNV Loss 21882294
nsv523468 CNV Loss 19592680
esv2734078 CNV Deletion 23290073
nsv887817 CNV Gain 21882294

Relevant External Links for HDAC9 Gene

HapMap Linkage Disequilibrium report
HDAC9
Human Gene Mutation Database (HGMD)
HDAC9

Disorders for HDAC9 Gene

UniProtKB/Swiss-Prot

HDAC9_HUMAN
  • Note=A chromosomal aberration involving HDAC9 is found in a family with Peters anomaly. Translocation t(1;7)(q41;p21) with TGFB2 resulting in lack of HDAC9 protein.

(6) University of Copenhagen DISEASES for HDAC9 Gene

(92) Novoseek inferred disease relationships for HDAC9 Gene

Disease -log(P) Hits PubMed IDs
cancer 73.4 176
lymphoma t-cell cutaneous 72.4 14
tumors 64.1 148
colon cancer 54 33
retinoblastoma 51.9 3

Relevant External Links for HDAC9

Genetic Association Database (GAD)
HDAC9
Human Genome Epidemiology (HuGE) Navigator
HDAC9
genes like me logo Genes that share disorders with HDAC9: view

Publications for HDAC9 Gene

  1. Cloning and characterization of a histone deacetylase, HDAC9. (PMID: 11535832) Zhou X. … Richon V.M. (Proc. Natl. Acad. Sci. U.S.A. 2001) 3 4 23
  2. The histone deacetylase 9 gene encodes multiple protein isoforms. (PMID: 12590135) Petrie K. … Zelent A. (J. Biol. Chem. 2003) 3 4 23
  3. Identification of a transcriptional repressor related to the noncatalytic domain of histone deacetylases 4 and 5. (PMID: 10655483) Zhou X. … Marks P.A. (Proc. Natl. Acad. Sci. U.S.A. 2000) 3 4 23
  4. HDAC4, a human histone deacetylase related to yeast HDA1, is a transcriptional corepressor. (PMID: 10523670) Wang A.H. … Yang X.-J. (Mol. Cell. Biol. 1999) 2 3 4
  5. MEF-2 function is modified by a novel co-repressor, MITR. (PMID: 10487760) Sparrow D.B. … Mohun T.J. (EMBO J. 1999) 2 3 4

Products for HDAC9 Gene

Sources for HDAC9 Gene

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