Free for academic non-profit institutions. Other users need a Commercial license

Aliases for HDAC5 Gene

Aliases for HDAC5 Gene

  • Histone Deacetylase 5 2 3
  • Antigen NY-CO-9 3 4
  • EC 3.5.1.98 4 63
  • HD5 3 4
  • KIAA0600 4
  • NY-CO-9 3

External Ids for HDAC5 Gene

Previous GeneCards Identifiers for HDAC5 Gene

  • GC17M041896
  • GC17M044331
  • GC17M042164
  • GC17M042629
  • GC17M039509
  • GC17M037918
  • GC17M042159

Summaries for HDAC5 Gene

Entrez Gene Summary for HDAC5 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 belongs to the class II histone deacetylase/acuc/apha family. It possesses histone deacetylase activity and represses transcription when tethered to a promoter. It coimmunoprecipitates only with HDAC3 family member and might form multicomplex proteins. It also interacts with myocyte enhancer factor-2 (MEF2) proteins, resulting in repression of MEF2-dependent genes. This gene is thought to be associated with colon cancer. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for HDAC5 Gene

HDAC5 (Histone Deacetylase 5) is a Protein Coding gene. Among its related pathways are Signaling by GPCR and Disease. GO annotations related to this gene include transcription factor binding and transcription regulatory region DNA binding. An important paralog of this gene is HDAC10.

UniProtKB/Swiss-Prot for HDAC5 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. Histone deacetylases act via the formation of large multiprotein complexes. Involved in muscle maturation by repressing transcription of myocyte enhancer MEF2C. During muscle differentiation, it shuttles into the cytoplasm, allowing the expression of myocyte enhancer factors. Involved in the MTA1-mediated epigenetic regulation of ESR1 expression in breast cancer.

Tocris Summary for HDAC5 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 HDAC5 Gene

No data available for PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HDAC5 Gene

Genomics for HDAC5 Gene

Regulatory Elements for HDAC5 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for HDAC5 Gene

Start:
44,076,746 bp from pter
End:
44,123,702 bp from pter
Size:
46,957 bases
Orientation:
Minus strand

Genomic View for HDAC5 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for HDAC5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HDAC5 Gene

Proteins for HDAC5 Gene

  • Protein details for HDAC5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UQL6-HDAC5_HUMAN
    Recommended name:
    Histone deacetylase 5
    Protein Accession:
    Q9UQL6
    Secondary Accessions:
    • C9JFV9
    • O60340
    • O60528
    • Q96DY4

    Protein attributes for HDAC5 Gene

    Size:
    1122 amino acids
    Molecular mass:
    121978 Da
    Quaternary structure:
    • Interacts with AHRR, BAHD1, BCOR, HDAC7, HDAC9, CTBP1, MEF2C, NCOR2, NRIP1, PHB2 and a 14-3-3 chaperone protein. Interacts with BCL6, DDIT3/CHOP, GRK5, KDM5B and MYOCD. Interacts with EP300 in the presence of TFAP2C.
    SequenceCaution:
    • Sequence=AAC18040.1; Type=Frameshift; Positions=1085; Evidence={ECO:0000305}; Sequence=BAA25526.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for HDAC5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for HDAC5 Gene

Proteomics data for HDAC5 Gene at MOPED

Post-translational modifications for HDAC5 Gene

  • Phosphorylated by AMPK, CaMK1, SIK1 and PRKD1 at Ser-259 and Ser-498. The phosphorylation is required for the export to the cytoplasm and inhibition. Phosphorylated by the PKC kinases PKN1 and PKN2, impairing nuclear import. Phosphorylated by GRK5, leading to nuclear export of HDAC5 and allowing MEF2-mediated transcription (By similarity).
  • Ubiquitinated. Polyubiquitination however does not lead to its degradation.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HDAC5 Gene

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for HDAC5 (HDAC5)

Domains for HDAC5 Gene

Suggested Antigen Peptide Sequences for HDAC5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9UQL6

UniProtKB/Swiss-Prot:

HDAC5_HUMAN :
  • Q9UQL6
Domain:
  • The nuclear export sequence mediates the shuttling between the nucleus and the cytoplasm.
Family:
  • Belongs to the histone deacetylase family. HD type 2 subfamily.
genes like me logo Genes that share domains with HDAC5: view

No data available for Gene Families for HDAC5 Gene

Function for HDAC5 Gene

Molecular function for HDAC5 Gene

UniProtKB/Swiss-Prot CatalyticActivity: Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone
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. Histone deacetylases act via the formation of large multiprotein complexes. Involved in muscle maturation by repressing transcription of myocyte enhancer MEF2C. During muscle differentiation, it shuttles into the cytoplasm, allowing the expression of myocyte enhancer factors. Involved in the MTA1-mediated epigenetic regulation of ESR1 expression in breast cancer.

Enzyme Numbers (IUBMB) for HDAC5 Gene

Gene Ontology (GO) - Molecular Function for HDAC5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001025 RNA polymerase III transcription factor binding IPI 23867755
GO:0001047 core promoter binding IDA 24413532
GO:0003714 transcription corepressor activity IEA --
GO:0004407 histone deacetylase activity IDA 10869435
GO:0005080 protein kinase C binding IPI 20188095
genes like me logo Genes that share ontologies with HDAC5: view
genes like me logo Genes that share phenotypes with HDAC5: view

Animal Model Products

CRISPR Products

miRNA for HDAC5 Gene

miRTarBase miRNAs that target HDAC5

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for HDAC5

In Situ Assay Products

Flow Cytometry Products

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for HDAC5 Gene

Localization for HDAC5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HDAC5 Gene

Nucleus. Cytoplasm. Note=Shuttles between the nucleus and the cytoplasm. In muscle cells, it shuttles into the cytoplasm during myocyte differentiation. The export to cytoplasm depends on the interaction with a 14-3-3 chaperone protein and is due to its phosphorylation at Ser-259 and Ser-498 by AMPK, CaMK1 and SIK1.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for HDAC5 Gene COMPARTMENTS Subcellular localization image for HDAC5 gene
Compartment Confidence
nucleus 5
golgi apparatus 4
cytosol 3

Gene Ontology (GO) - Cellular Components for HDAC5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000118 histone deacetylase complex TAS 12711221
GO:0005634 nucleus IDA 10869435
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IDA --
GO:0005794 Golgi apparatus IDA --
genes like me logo Genes that share ontologies with HDAC5: view

Pathways for HDAC5 Gene

genes like me logo Genes that share pathways with HDAC5: view

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays
    • Epigenetic Chromatin Modification Enzymes in human,mouse,rat
    • Hematopoiesis in human,mouse,rat
    • Inflammatory Response & Autoimmunity 384HT in human,mouse,rat
    • Nuclear Receptors & Coregulators in human,mouse,rat
    • Skeletal Muscle: Myogenesis & Myopathy in human,mouse,rat

Gene Ontology (GO) - Biological Process for HDAC5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IMP 10983972
GO:0002076 osteoblast development IEA --
GO:0006325 chromatin organization TAS 12711221
GO:0006338 chromatin remodeling TAS 10220385
GO:0006342 chromatin silencing TAS 10869435
genes like me logo Genes that share ontologies with HDAC5: view

Compounds for HDAC5 Gene

(29) ApexBio Compounds for HDAC5 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 HDAC5 Gene

Compound Action Cas Number
FK 228 Potent and selective class I histone deacetylase inhibitor; antitumor [128517-07-7]
LMK 235 Selective HDAC4/HDAC5 inhibitor [1418033-25-6]
PCI 34051 Potent and selective histone deacetylase 8 (HDAC8) inhibitor; induces apoptosis in T cell-derived cell lines [950762-95-5]
SAHA Class I and II HDAC inhibitor [149647-78-9]
Trichostatin A Potent histone deacetylase inhibitor [58880-19-6]

(1) HMDB Compounds for HDAC5 Gene

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

(5) Novoseek inferred chemical compound relationships for HDAC5 Gene

Compound -log(P) Hits PubMed IDs
calcium 28.9 12
inositol 1,4,5 trisphosphate 27.3 3
serine 21.3 1
glucose 0 2
zinc 0 1
genes like me logo Genes that share compounds with HDAC5: view

Transcripts for HDAC5 Gene

Unigene Clusters for HDAC5 Gene

Histone deacetylase 5:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for HDAC5

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for HDAC5 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15 ^ 16a · 16b · 16c ^ 17 ^ 18 ^ 19 ^
SP1: -
SP2: -
SP3: - -
SP4:
SP5:
SP6:
SP7:
SP8: -
SP9: -
SP10:
SP11:

ExUns: 20 ^ 21a · 21b ^ 22 ^ 23
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:

Relevant External Links for HDAC5 Gene

GeneLoc Exon Structure for
HDAC5
ECgene alternative splicing isoforms for
HDAC5

Expression for HDAC5 Gene

mRNA expression in normal human tissues for HDAC5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for HDAC5 Gene

SOURCE GeneReport for Unigene cluster for HDAC5 Gene Hs.438782

mRNA Expression by UniProt/SwissProt for HDAC5 Gene

Q9UQL6-HDAC5_HUMAN
Tissue specificity: Ubiquitous
genes like me logo Genes that share expressions with HDAC5: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for HDAC5 Gene

Orthologs for HDAC5 Gene

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

Orthologs for HDAC5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HDAC5 35
  • 99.76 (n)
  • 99.91 (a)
HDAC5 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia HDAC5 35
  • 92.66 (n)
  • 96.17 (a)
HDAC5 36
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia HDAC5 35
  • 92.54 (n)
  • 96.08 (a)
HDAC5 36
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Hdac5 35
  • 90.47 (n)
  • 94.33 (a)
Hdac5 16
Hdac5 36
  • 96 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia HDAC5 36
  • 91 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 42 (a)
ManyToMany
rat
(Rattus norvegicus)
Mammalia Hdac5 35
  • 89.92 (n)
  • 94.24 (a)
lizard
(Anolis carolinensis)
Reptilia HDAC5 36
  • 81 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia hdac5 35
  • 67.19 (n)
  • 71.25 (a)
zebrafish
(Danio rerio)
Actinopterygii hdac5 36
  • 73 (a)
OneToOne
LOC557486 35
  • 68.46 (n)
  • 73.01 (a)
fruit fly
(Drosophila melanogaster)
Insecta HDAC4 36
  • 32 (a)
OneToMany
HDAC4 37
  • 55 (a)
worm
(Caenorhabditis elegans)
Secernentea hda-4 36
  • 33 (a)
OneToMany
hda-4 37
  • 51 (a)
F43G6.4 37
  • 31 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes HDA1 36
  • 9 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 54 (a)
ManyToMany
CSA.5129 36
  • 34 (a)
ManyToMany
Species with no ortholog for HDAC5:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • wheat (Triticum aestivum)

Evolution for HDAC5 Gene

ENSEMBL:
Gene Tree for HDAC5 (if available)
TreeFam:
Gene Tree for HDAC5 (if available)

Paralogs for HDAC5 Gene

Paralogs for HDAC5 Gene

Selected SIMAP similar genes for HDAC5 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with HDAC5: view

Variants for HDAC5 Gene

Sequence variations from dbSNP and Humsavar for HDAC5 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type MAF
rs81367 -- 44,081,741(-) attag(C/T)taggt intron-variant
rs170634 -- 44,098,453(-) CCCAG(G/T)TTCCC intron-variant
rs170636 -- 44,106,661(-) gtgag(C/T)cgaga intron-variant
rs170637 -- 44,109,500(-) GCCCC(A/G)AGGAT intron-variant
rs170638 -- 44,116,745(+) CACTA(G/T)AACAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for HDAC5 Gene

Variant ID Type Subtype PubMed ID
nsv833454 CNV Loss 17160897
nsv833455 CNV Loss 17160897
nsv908269 CNV Loss 21882294
nsv908270 CNV Loss 21882294

Relevant External Links for HDAC5 Gene

HapMap Linkage Disequilibrium report
HDAC5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HDAC5 Gene

Disorders for HDAC5 Gene

(3) Novoseek inferred disease relationships for HDAC5 Gene

Disease -log(P) Hits PubMed IDs
cardiac hypertrophy 59.6 6
hypertrophy 34.7 5
heart failure 17.1 4

Relevant External Links for HDAC5

Genetic Association Database (GAD)
HDAC5
Human Genome Epidemiology (HuGE) Navigator
HDAC5
genes like me logo Genes that share disorders with HDAC5: view

No data available for UniProtKB/Swiss-Prot for HDAC5 Gene

Publications for HDAC5 Gene

  1. Three proteins define a class of human histone deacetylases related to yeast Hda1p. (PMID: 10220385) Grozinger C.M. … Schreiber S.L. (Proc. Natl. Acad. Sci. U.S.A. 1999) 2 3 4 23
  2. Chromosomal organization and localization of the human histone deacetylase 5 gene (HDAC5). (PMID: 11018260) Mahlknecht U. … Hoelzer D. (Biochim. Biophys. Acta 2000) 3 4 23
  3. Signal-dependent nuclear export of a histone deacetylase regulates muscle differentiation. (PMID: 11081517) McKinsey T.A. … Olson E.N. (Nature 2000) 3 4 23
  4. AMP-activated protein kinase regulates GLUT4 transcription by phosphorylating histone deacetylase 5. (PMID: 18184930) McGee S.L. … Hargreaves M. (Diabetes 2008) 3 4 23
  5. Protein kinase D-dependent phosphorylation and nuclear export of histone deacetylase 5 mediates vascular endothelial growth factor- induced gene expression and angiogenesis. (PMID: 18332134) Ha C.H. … Jin Z.G. (J. Biol. Chem. 2008) 3 4 23

Products for HDAC5 Gene

  • Addgene plasmids for HDAC5

Sources for HDAC5 Gene

Back to Top

Content