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Aliases for HDAC11 Gene

Aliases for HDAC11 Gene

  • Histone Deacetylase 11 2 3 5
  • EC 3.5.1.98 4 61
  • HD11 3 4

External Ids for HDAC11 Gene

Previous GeneCards Identifiers for HDAC11 Gene

  • GC03P013451

Summaries for HDAC11 Gene

Entrez Gene Summary for HDAC11 Gene

  • This gene encodes a class IV histone deacetylase. The encoded protein is localized to the nucleus and may be involved in regulating the expression of interleukin 10. Alternative splicing results in multiple transcript variants.[provided by RefSeq, Apr 2009]

GeneCards Summary for HDAC11 Gene

HDAC11 (Histone Deacetylase 11) is a Protein Coding gene. Among its related pathways are PEDF Induced Signaling and Phospholipase-C Pathway. GO annotations related to this gene include hydrolase activity and histone deacetylase activity.

UniProtKB/Swiss-Prot for HDAC11 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.

Tocris Summary for HDAC11 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 HDAC11 Gene

No data available for CIViC summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HDAC11 Gene

Genomics for HDAC11 Gene

Regulatory Elements for HDAC11 Gene

Enhancers for HDAC11 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
GH03G013001 2 FANTOM5 Ensembl ENCODE dbSUPER 10.1 -466.6 -466611 22.6 HDGF PKNOX1 CREB3L1 ARNT WRNIP1 SIN3A YBX1 ZNF766 CBX5 ZNF143 IQSEC1 HDAC11 HDAC11-AS1 CAND2 NUP210 RPL32 GC03P013022 GC03M014199 PIR41577
GH03G013542 1.2 Ensembl ENCODE dbSUPER 15.8 +64.5 64487 2.4 JUN MAX ZIC2 SMC3 FOS CHD2 EGR2 ZNF362 SMARCC1 MAZ HDAC11 HDAC11-AS1 FBLN2 PIR59377
GH03G013546 1.5 Ensembl ENCODE dbSUPER 11.2 +67.1 67080 1.5 PKNOX1 ATF1 ARNT TCF12 ELK1 GATA2 FOS JUNB NCOA1 ZNF518A HDAC11 HDAC11-AS1 VN1R20P FBLN2 PIR59377
GH03G013351 1.3 ENCODE dbSUPER 10.6 -126.6 -126550 2.4 HDGF PKNOX1 FOXA2 ARNT ARID4B YY1 TCF12 GLIS2 CBX5 FOS NUP210 HDAC11-AS1 HDAC11 IQSEC1
GH03G013598 1.3 Ensembl ENCODE dbSUPER 10.5 +120.7 120660 3.3 CTCF PKNOX1 FOXA2 NFIB JUN RAD21 ZFHX2 ZBTB48 FOS EGR2 HDAC11 HDAC11-AS1 VN1R20P GC03M014224 GC03P013574
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around HDAC11 on UCSC Golden Path with GeneCards custom track

Promoters for HDAC11 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000148803 376 1401 HDGF PKNOX1 MLX AGO1 SIN3A ARID4B DMAP1 ZNF2 ZBTB7B ZNF766

Genomic Location for HDAC11 Gene

Chromosome:
3
Start:
13,479,724 bp from pter
End:
13,506,424 bp from pter
Size:
26,701 bases
Orientation:
Plus strand

Genomic View for HDAC11 Gene

Genes around HDAC11 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HDAC11 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HDAC11 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HDAC11 Gene

Proteins for HDAC11 Gene

  • Protein details for HDAC11 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96DB2-HDA11_HUMAN
    Recommended name:
    Histone deacetylase 11
    Protein Accession:
    Q96DB2
    Secondary Accessions:
    • B4DDK1
    • Q9H6I7
    • Q9H6X3
    • Q9NTC9

    Protein attributes for HDAC11 Gene

    Size:
    347 amino acids
    Molecular mass:
    39183 Da
    Quaternary structure:
    • Interacts with HDAC6.
    Miscellaneous:
    • Its activity is inhibited by trapoxin, a known histone deacetylase inhibitor.
    SequenceCaution:
    • Sequence=BAB15127.1; Type=Erroneous termination; Positions=107; Note=Translated as Gln.; Evidence={ECO:0000305}; Sequence=CAB70712.1; Type=Frameshift; Positions=177, 198, 200; Evidence={ECO:0000305};

    Alternative splice isoforms for HDAC11 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for HDAC11 Gene

Selected DME Specific Peptides for HDAC11 Gene

Q96DB2:
  • IIDLDAHQGNGHE
  • EKLHPFD
  • RGGGFCA

Post-translational modifications for HDAC11 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for HDAC11 (HDAC11)
  • Abcam antibodies for HDAC11
  • Santa Cruz Biotechnology (SCBT) Antibodies for HDAC11

Domains & Families for HDAC11 Gene

Gene Families for HDAC11 Gene

Protein Domains for HDAC11 Gene

Suggested Antigen Peptide Sequences for HDAC11 Gene

Graphical View of Domain Structure for InterPro Entry

Q96DB2

UniProtKB/Swiss-Prot:

HDA11_HUMAN :
  • Belongs to the histone deacetylase family.
Family:
  • Belongs to the histone deacetylase family.
genes like me logo Genes that share domains with HDAC11: view

Function for HDAC11 Gene

Molecular function for HDAC11 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.

Enzyme Numbers (IUBMB) for HDAC11 Gene

Gene Ontology (GO) - Molecular Function for HDAC11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004407 histone deacetylase activity IDA,IEA 11948178
GO:0008134 transcription factor binding TAS 12711221
GO:0016787 hydrolase activity IEA --
GO:0032041 NAD-dependent histone deacetylase activity (H3-K14 specific) IEA --
genes like me logo Genes that share ontologies with HDAC11: view
genes like me logo Genes that share phenotypes with HDAC11: view

Animal Models for HDAC11 Gene

MGI Knock Outs for HDAC11:

Animal Model Products

  • Taconic Biosciences Mouse Models for HDAC11

CRISPR Products

miRNA for HDAC11 Gene

miRTarBase miRNAs that target HDAC11

Inhibitory RNA Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HDAC11 Gene

Localization for HDAC11 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HDAC11 Gene

Nucleus. Note=Predominantly nuclear.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for HDAC11 gene
Compartment Confidence
plasma membrane 5
extracellular 5
nucleus 5
cytosol 2
mitochondrion 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for HDAC11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000118 histone deacetylase complex IDA 11948178
GO:0005634 nucleus IDA,IEA 11948178
GO:0005886 plasma membrane IDA --
GO:0070062 extracellular exosome IDA 23376485
genes like me logo Genes that share ontologies with HDAC11: view

Pathways & Interactions for HDAC11 Gene

genes like me logo Genes that share pathways with HDAC11: view

Gene Ontology (GO) - Biological Process for HDAC11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006325 chromatin organization TAS 12711221
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0014003 oligodendrocyte development IEA --
GO:0016569 covalent chromatin modification IEA --
genes like me logo Genes that share ontologies with HDAC11: view

No data available for SIGNOR curated interactions for HDAC11 Gene

Drugs & Compounds for HDAC11 Gene

(13) Drugs for HDAC11 Gene - From: DrugBank, ApexBio, DGIdb, and Tocris

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Belinostat Approved, Investigational Pharma Inhibitor, Target Histone deacetylase (HDAC)inhibitors 42
Panobinostat Approved, Investigational Pharma Inhibition, inhibitor, Target Histone deacetylase (HDAC)inhibitors 135
Romidepsin Approved, Investigational Pharma inhibitor Histone deacetylase (HDAC)inhibitors 87
Vorinostat Approved, Investigational Pharma inhibitor HDAC inhibitor, Histone deacetylase (HDAC)inhibitors 247
MGCD-0103 Investigational Pharma inhibitor 0

(3) Additional Compounds for HDAC11 Gene - From: Tocris

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 HDAC11 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

(1) ApexBio Compounds for HDAC11 Gene

Compound Action Cas Number
JNJ-26481585 Potent HDAC inhibitor 875320-29-9
genes like me logo Genes that share compounds with HDAC11: view

Transcripts for HDAC11 Gene

Unigene Clusters for HDAC11 Gene

Histone deacetylase 11:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for HDAC11 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b · 8c ^ 9 ^ 10 ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15a · 15b · 15c · 15d
SP1: - - - -
SP2: - - - - - -
SP3: - - - -
SP4: - - - - - - - - - - - -
SP5: - - -
SP6: -
SP7: - - - - - - - - - - - -
SP8: - - - - - - -
SP9: - - - - - - - - - - - - - - -
SP10: -
SP11: - - - - - - - - - -
SP12: - - - - - - -
SP13:

Relevant External Links for HDAC11 Gene

GeneLoc Exon Structure for
HDAC11
ECgene alternative splicing isoforms for
HDAC11

Expression for HDAC11 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HDAC11 Gene

Protein differential expression in normal tissues from HIPED for HDAC11 Gene

This gene is overexpressed in Liver (41.3), Frontal cortex (10.4), and Spinal cord (9.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for HDAC11 Gene



Protein tissue co-expression partners for HDAC11 Gene

NURSA nuclear receptor signaling pathways regulating expression of HDAC11 Gene:

HDAC11

SOURCE GeneReport for Unigene cluster for HDAC11 Gene:

Hs.744132

mRNA Expression by UniProt/SwissProt for HDAC11 Gene:

Q96DB2-HDA11_HUMAN
Tissue specificity: Weakly expressed in most tissues. Strongly expressed in brain, heart, skeletal muscle, kidney and testis.

Evidence on tissue expression from TISSUES for HDAC11 Gene

  • Nervous system(4.6)
  • Intestine(4.3)
genes like me logo Genes that share expression patterns with HDAC11: view

Primer Products

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for HDAC11 Gene

Orthologs for HDAC11 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for HDAC11 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HDAC11 34 35
  • 99.89 (n)
dog
(Canis familiaris)
Mammalia HDAC11 34 35
  • 89.34 (n)
cow
(Bos Taurus)
Mammalia HDAC11 34 35
  • 87.99 (n)
mouse
(Mus musculus)
Mammalia Hdac11 34 16 35
  • 87.42 (n)
rat
(Rattus norvegicus)
Mammalia Hdac11 34
  • 87.42 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia HDAC11 35
  • 73 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia HDAC11 35
  • 71 (a)
OneToOne
chicken
(Gallus gallus)
Aves HDAC11 34 35
  • 69.25 (n)
lizard
(Anolis carolinensis)
Reptilia HDAC11 35
  • 75 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii hdac11 34 35
  • 69.09 (n)
HDAC11 (3 of 3) 35
  • 60 (a)
OneToMany
HDAC11 (2 of 3) 35
  • 27 (a)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001736 34
  • 58.91 (n)
fruit fly
(Drosophila melanogaster)
Insecta HdacX 34 35
  • 56.06 (n)
worm
(Caenorhabditis elegans)
Secernentea hda-11 34 35
  • 50.92 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes HOS2 35
  • 18 (a)
OneToMany
HOS1 35
  • 14 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons HDA2 34
  • 56.59 (n)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.12177 34
rice
(Oryza sativa)
Liliopsida Os06g0571100 34
  • 58.98 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 54 (a)
OneToOne
Species where no ortholog for HDAC11 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for HDAC11 Gene

ENSEMBL:
Gene Tree for HDAC11 (if available)
TreeFam:
Gene Tree for HDAC11 (if available)

Paralogs for HDAC11 Gene

No data available for Paralogs for HDAC11 Gene

Variants for HDAC11 Gene

Sequence variations from dbSNP and Humsavar for HDAC11 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs1000097992 -- 13,493,976(+) CTGAC(A/G)TCTGG intron-variant
rs1000337717 -- 13,485,990(+) AGGCC(A/G/T)GGTGC intron-variant
rs1000361842 -- 13,502,144(+) CCCTC(C/T)TCCTG intron-variant
rs1000401841 -- 13,495,971(+) CCTAG(A/C)AGGCA intron-variant
rs1000524228 -- 13,490,455(+) ATATT(C/T)GGTCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for HDAC11 Gene

Variant ID Type Subtype PubMed ID
nsv1011766 CNV gain 25217958
nsv470416 CNV loss 18288195
nsv955316 CNV deletion 24416366

Variation tolerance for HDAC11 Gene

Residual Variation Intolerance Score: 28.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.40; 8.75% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HDAC11 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HDAC11

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HDAC11 Gene

Disorders for HDAC11 Gene

Relevant External Links for HDAC11

Genetic Association Database (GAD)
HDAC11
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HDAC11

No disorders were found for HDAC11 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HDAC11 Gene

Publications for HDAC11 Gene

  1. Cloning and functional characterization of HDAC11, a novel member of the human histone deacetylase family. (PMID: 11948178) Gao L. … Atadja P. (J. Biol. Chem. 2002) 2 3 4 64
  2. Hundreds of variants clustered in genomic loci and biological pathways affect human height. (PMID: 20881960) Lango Allen H. … Hirschhorn J.N. (Nature 2010) 3 46 64
  3. Mutational analyses of WNT7A and HDAC11 as candidate tumour suppressor genes in sporadic malignant pancreatic endocrine tumours. (PMID: 17201809) Lindberg D. … Westin G. (Clin. Endocrinol. (Oxf) 2007) 3 22 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for HDAC11 Gene

Sources for HDAC11 Gene

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