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Aliases for HDAC5 Gene

Aliases for HDAC5 Gene

  • Histone Deacetylase 5 2 3 5
  • Antigen NY-CO-9 3 4
  • EC 3.5.1.98 4 61
  • 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 Assembly of RNA Polymerase-II Initiation Complex and Signaling by GPCR. GO annotations related to this gene include transcription factor binding and transcription corepressor activity. An important paralog of this gene is HDAC4.

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 acetyl group removal from lysine residues in histones and non-histone proteins, causing transcriptional repression. HDACs are usually components of multiprotein complexes.

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

Enhancers for HDAC5 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
- Elite enhancer/Elite enhancer-gene association

Enhancers around HDAC5 on UCSC Golden Path with GeneCards custom track

Promoters for HDAC5 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

Genomic Location for HDAC5 Gene

Chromosome:
17
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

Genes around HDAC5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HDAC5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
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

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

Domains & Families for HDAC5 Gene

Gene Families 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 :
  • The nuclear export sequence mediates the shuttling between the nucleus and the cytoplasm.
  • Belongs to the histone deacetylase family. HD type 2 subfamily.
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

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:0003682 chromatin binding 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 Models for HDAC5 Gene

MGI Knock Outs for HDAC5:

Animal Model Products

  • Taconic Biosciences Mouse Models for HDAC5

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for HDAC5

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets 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
golgi apparatus 5
nucleus 5
cytosol 4
plasma membrane 1

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 10869435
GO:0005794 Golgi apparatus IDA --
genes like me logo Genes that share ontologies with HDAC5: view

Pathways & Interactions for HDAC5 Gene

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

SIGNOR curated interactions for HDAC5 Gene

Inactivates:
Is activated by:
Is inactivated by:

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:0006325 chromatin organization TAS 12711221
GO:0006338 chromatin remodeling TAS 10220385
GO:0006342 chromatin silencing TAS 10869435
GO:0006351 transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with HDAC5: view

Drugs & Compounds for HDAC5 Gene

(42) Drugs for HDAC5 Gene - From: DrugBank, ApexBio, DGIdb, HMDB, Tocris, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Sodium phenylbutyrate Approved Pharma Inhibitor Histone deacetylase inhibitor, Histone deacetylase (HDAC)inhibitors 0
Panobinostat Approved, Investigational Pharma Inhibition, inhibitor, Target Histone deacetylase (HDAC)inhibitors 135
Belinostat Approved, Investigational Pharma Inhibitor Histone deacetylase (HDAC)inhibitors 42
Romidepsin Approved, Investigational Pharma inhibitor Histone deacetylase (HDAC)inhibitors 84
Valproic Acid Approved, Investigational Pharma inhibitor HDAC1 inhibitor, Histone deacetylase (HDAC)inhibitors 318

(4) Additional Compounds for HDAC5 Gene - From: Tocris and Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
FK 228
128517-07-7
MC 1742
1776116-74-5
SAHA
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
MC 1568 Selective HDAC class II (IIa) inhibitor 852475-26-4
MC 1742 Potent class I and IIb HDAC inhibitor 1776116-74-5
SAHA Class I and II HDAC inhibitor 149647-78-9
Trichostatin A Potent histone deacetylase inhibitor 58880-19-6

(20) ApexBio Compounds for HDAC5 Gene

Compound Action Cas Number
AR-42 (OSU-HDAC42) HDAC inhibitor,novel and potent 935881-37-1
Belinostat (PXD101) Hydroxamate-type HDAC inhibitor 414864-00-9
BMS-345541(free base) IKK-1/IKK-2 inhibitor,potent and selective 445430-58-0
CUDC-101 Multitargeted HDAC inhibitor 1012054-59-9
HPOB HDAC6 inhibitor, potent and selective 1429651-50-2
ITF2357 (Givinostat) HDAC inhibitor 732302-99-7
LAQ824 (NVP-LAQ824,Dacinostat) HDAC inhibitor,potent and novel 404951-53-7
LMK 235 HDAC4/HDAC5 inhibitor 1418033-25-6
M344 HDAC inhibitor,potent and cell-permeable 251456-60-7
MC1568 Class II HDAC inhibitor,potent and 852475-26-4
Panobinostat (LBH589) HDAC inhibitor 404950-80-7
Parthenolide 20554-84-1
Pracinostat (SB939) Pan-HDAC inhibitor 929016-96-6
Santacruzamate A (CAY10683) 1477949-42-0
Sodium Phenylbutyrate Histone deacetylase inhibitor 1716-12-7
TMP269 HDAC 4/5/7/9 inhibitor 1314890-29-3
Trichostatin A (TSA) HDAC inhibitor 58880-19-6
Tubacin HDAC6 inhibitor,potent,selective,reversible,cell-permeable 1350555-93-9
Valproic acid sodium salt (Sodium valproate) HDAC inhibitor 1069-66-5
Vorinostat (SAHA, MK0683) HDAC inhibitor 149647-78-9
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

Clone Products

  • Addgene plasmids for HDAC5

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

Protein differential expression in normal tissues from HIPED for HDAC5 Gene

This gene is overexpressed in Testis (40.4) and Heart (10.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for HDAC5 Gene



NURSA nuclear receptor signaling pathways regulating expression of HDAC5 Gene:

HDAC5

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 expression patterns with HDAC5: view

Primer Products

No data available for mRNA differential expression in normal tissues and Protein tissue co-expression partners 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
cow
(Bos Taurus)
Mammalia HDAC5 34
  • 92.66 (n)
  • 96.17 (a)
HDAC5 35
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia HDAC5 34
  • 92.54 (n)
  • 96.08 (a)
HDAC5 35
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Hdac5 34
  • 90.47 (n)
  • 94.33 (a)
Hdac5 16
Hdac5 35
  • 96 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia HDAC5 34
  • 99.76 (n)
  • 99.91 (a)
HDAC5 35
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Hdac5 34
  • 89.92 (n)
  • 94.24 (a)
oppossum
(Monodelphis domestica)
Mammalia HDAC5 35
  • 91 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 42 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia HDAC5 35
  • 81 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia hdac5 34
  • 67.19 (n)
  • 71.25 (a)
zebrafish
(Danio rerio)
Actinopterygii LOC557486 34
  • 68.46 (n)
  • 73.01 (a)
hdac5 35
  • 73 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta HDAC4 36
  • 55 (a)
HDAC4 35
  • 32 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea F43G6.4 36
  • 31 (a)
hda-4 36
  • 51 (a)
hda-4 35
  • 33 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes HDA1 35
  • 9 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 54 (a)
ManyToMany
CSA.5129 35
  • 34 (a)
ManyToMany
Species where no ortholog for HDAC5 was found in the sources mined by GeneCards:
  • 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

(6) 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
rs438096 - 44,093,430(+) gctgc(C/T)gcttg nc-transcript-variant, reference, missense
rs33916560 - 44,087,602(+) CCTCC(C/G)CCAGC nc-transcript-variant, reference, missense
rs81367 -- 44,081,741(-) attag(C/T)taggt intron-variant
rs430243 -- 44,095,826(+) TTTCG(A/G)CAGAG intron-variant
rs430412 -- 44,095,784(+) aatca(C/G)acagg intron-variant

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

Variant ID Type Subtype PubMed ID
nsv1146669 OTHER inversion 26484159
nsv833454 CNV loss 17160897
nsv833455 CNV loss 17160897

Variation tolerance for HDAC5 Gene

Residual Variation Intolerance Score: 4.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.85; 48.16% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HDAC5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HDAC5

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

Disorders for HDAC5 Gene

Relevant External Links for HDAC5

Genetic Association Database (GAD)
HDAC5
Human Genome Epidemiology (HuGE) Navigator
HDAC5
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HDAC5

No disorders were found for HDAC5 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas 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 22 65
  2. Protein kinase C-related kinase targets nuclear localization signals in a subset of class IIa histone deacetylases. (PMID: 20188095) Harrison B.C. … McKinsey T.A. (FEBS Lett. 2010) 3 4 22 65
  3. Human BAHD1 promotes heterochromatic gene silencing. (PMID: 19666599) Bierne H. … Cossart P. (Proc. Natl. Acad. Sci. U.S.A. 2009) 3 4 22 65
  4. Twenty bone-mineral-density loci identified by large-scale meta-analysis of genome-wide association studies. (PMID: 19801982) Rivadeneira F. … Uitterlinden A.G. (Nat. Genet. 2009) 3 22 46 65
  5. AMP-activated protein kinase regulates GLUT4 transcription by phosphorylating histone deacetylase 5. (PMID: 18184930) McGee S.L. … Hargreaves M. (Diabetes 2008) 3 4 22 65

Products for HDAC5 Gene

Sources for HDAC5 Gene

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