Hdac6 histone deacetylase 6 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Hdac6provided by MGI
Official Full Name: histone deacetylase 6provided by MGI
Primary source: MGI:MGI:1333752
See related: Ensembl:ENSMUSG00000031161 AllianceGenome:MGI:1333752
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Hd6; Sfc6; Hdac5; mHDA2
Summary: Enables cytoskeletal protein binding activity; protein deacetylase activity; and ubiquitin binding activity. Involved in several processes, including positive regulation of peptidyl-serine phosphorylation; protein deacetylation; and protein destabilization. Acts upstream of or within several processes, including aggresome assembly; cellular protein metabolic process; and neuron projection morphogenesis. Located in several cellular components, including dendrite; microtubule cytoskeleton; and perikaryon. Part of protein-containing complex. Is expressed in several structures, including central nervous system; early embryo; future midbrain; gut gland; and lung. Human ortholog(s) of this gene implicated in chondrodysplasia with platyspondyly, distinctive brachydactyly, hydrocephaly, and microphthalmia. Orthologous to human HDAC6 (histone deacetylase 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in genital fat pad adult (RPKM 65.5), whole brain E14.5 (RPKM 26.3) and 27 other tissues See more
Orthologs: human all
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Genomic context

Location:: X A1.1; X 3.58 cM

Exon count:: 31

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	X	NC_000086.8 (7796355..7814284, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	X	NC_000086.7 (7930116..7948047, complement)

Chromosome X - NC_000086.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Central inhibition of HDAC6 re-sensitizes leptin signaling during obesity to induce profound weight loss.
Title: Central inhibition of HDAC6 re-sensitizes leptin signaling during obesity to induce profound weight loss.
The role of HDAC6 in enhancing macrophage autophagy via the autophagolysosomal pathway to alleviate legionella pneumophila-induced pneumonia.
Title: The role of HDAC6 in enhancing macrophage autophagy via the autophagolysosomal pathway to alleviate legionella pneumophila-induced pneumonia.
Targeting HDAC6 to treat heart failure with preserved ejection fraction in mice.
Title: Targeting HDAC6 to treat heart failure with preserved ejection fraction in mice.
HDAC6/aggresome processing pathway importance for inflammasome formation is context-dependent.
Title: HDAC6/aggresome processing pathway importance for inflammasome formation is context-dependent.
Histone deacetylase 6 deficiency protects the liver against ischemia/reperfusion injury by activating PI3K/AKT/mTOR signaling.
Title: Histone deacetylase 6 deficiency protects the liver against ischemia/reperfusion injury by activating PI3K/AKT/mTOR signaling.
HDAC6 preserves BNIP3 expression and mitochondrial integrity by deacetylating p53 at lysine 320.
Title: HDAC6 preserves BNIP3 expression and mitochondrial integrity by deacetylating p53 at lysine 320.
HDAC6 deacetylates IDH1 to promote the homeostasis of hematopoietic stem and progenitor cells.
Title: HDAC6 deacetylates IDH1 to promote the homeostasis of hematopoietic stem and progenitor cells.
HDAC6 Deficiency Has Moderate Effects on Behaviors and Parkinson's Disease Pathology in Mice.
Title: HDAC6 Deficiency Has Moderate Effects on Behaviors and Parkinson's Disease Pathology in Mice.
Histone Deacetylase 6 Inhibition Exploits Selective Metabolic Vulnerabilities in LKB1 Mutant, KRAS Driven NSCLC.
Title: Histone Deacetylase 6 Inhibition Exploits Selective Metabolic Vulnerabilities in LKB1 Mutant, KRAS Driven NSCLC.
Upregulation of Profilin 2 on HDAC6 overexpression in mouse GC-1 cells and its putative role in germ cell migration in the testis.
Title: Upregulation of Profilin 2 on HDAC6 overexpression in mouse GC-1 cells and its putative role in germ cell migration in the testis.

Submit: New GeneRIF Correction See all GeneRIFs (154)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Gene trapped (1)
Targeted (6) 1 citation
Endonuclease-mediated (7)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AF006603 (e-PCR)
- UniSTS:186168

RH126845 (e-PCR)
- UniSTS:209496

DXImx16 (e-PCR), detects polymorphism
- UniSTS:186200

DXImx17 (e-PCR), detects polymorphism
- UniSTS:186201

OMM5169 (e-PCR)
- UniSTS:465784

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables Hsp90 protein binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables actin binding	IEA Inferred from Electronic Annotation more info
enables alpha-tubulin binding	IDA Inferred from Direct Assay more info
enables alpha-tubulin binding	ISO Inferred from Sequence Orthology more info
enables beta-catenin binding	ISO Inferred from Sequence Orthology more info
enables beta-tubulin binding	IDA Inferred from Direct Assay more info	PubMed
enables dynein complex binding	ISO Inferred from Sequence Orthology more info
enables histone deacetylase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone deacetylase activity	IDA Inferred from Direct Assay more info	PubMed
enables histone deacetylase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables histone deacetylase activity	ISO Inferred from Sequence Orthology more info
enables histone deacetylase binding	ISO Inferred from Sequence Orthology more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables microtubule binding	IDA Inferred from Direct Assay more info	PubMed
enables microtubule binding	ISO Inferred from Sequence Orthology more info
enables misfolded protein binding	ISO Inferred from Sequence Orthology more info
enables polyubiquitin modification-dependent protein binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein lysine deacetylase activity	ISO Inferred from Sequence Orthology more info
enables tau protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables tau protein binding	ISO Inferred from Sequence Orthology more info
enables transcription corepressor binding	ISO Inferred from Sequence Orthology more info
enables transcription factor binding	IBA Inferred from Biological aspect of Ancestor more info
enables tubulin deacetylase activity	IDA Inferred from Direct Assay more info	PubMed
enables tubulin deacetylase activity	IGI Inferred from Genetic Interaction more info	PubMed
enables tubulin deacetylase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables tubulin deacetylase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin binding	IDA Inferred from Direct Assay more info	PubMed
enables ubiquitin protein ligase binding	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within Hsp90 deacetylation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within actin filament organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within aggresome assembly	IGI Inferred from Genetic Interaction more info	PubMed
involved_in aggresome assembly	ISO Inferred from Sequence Orthology more info
involved_in axonal transport of mitochondrion	ISO Inferred from Sequence Orthology more info
involved_in cellular response to hydrogen peroxide	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to misfolded protein	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to topologically incorrect protein	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in cilium disassembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within collateral sprouting	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dendritic spine morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in epigenetic regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within erythrocyte enucleation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intracellular protein transport	ISO Inferred from Sequence Orthology more info
involved_in lysosome localization	ISO Inferred from Sequence Orthology more info
involved_in mitochondrion localization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within myotube differentiation	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within myotube differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of aggrephagy	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression, epigenetic	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of microtubule depolymerization	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of protein-containing complex assembly	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protein-containing complex disassembly	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of proteolysis	ISO Inferred from Sequence Orthology more info
involved_in parkin-mediated stimulation of mitophagy in response to mitochondrial depolarization	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-lysine deacetylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in peptidyl-lysine deacetylation	ISO Inferred from Sequence Orthology more info
involved_in polyubiquitinated misfolded protein transport	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of epithelial cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitophagy in response to mitochondrial depolarization	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of peptidyl-serine phosphorylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of peptidyl-serine phosphorylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of positive regulation of signaling receptor activity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein deacetylation	IDA Inferred from Direct Assay more info	PubMed
involved_in protein deacetylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein deacylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein destabilization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein polyubiquitination	IDA Inferred from Direct Assay more info	PubMed
involved_in protein quality control for misfolded or incompletely synthesized proteins	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein-containing complex disassembly	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of establishment of protein localization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of fat cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of macroautophagy	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein stability	ISO Inferred from Sequence Orthology more info
involved_in response to growth factor	ISO Inferred from Sequence Orthology more info
involved_in response to misfolded protein	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within skeletal muscle tissue development	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within skeletal muscle tissue development	ISO Inferred from Sequence Orthology more info
involved_in tubulin deacetylation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within tubulin deacetylation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within tubulin deacetylation	ISO Inferred from Sequence Orthology more info
involved_in tubulin deacetylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ubiquitin-dependent protein catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in aggresome	ISO Inferred from Sequence Orthology more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in caveola	ISO Inferred from Sequence Orthology more info
located_in cell leading edge	ISO Inferred from Sequence Orthology more info
located_in cell projection	IEA Inferred from Electronic Annotation more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in ciliary basal body	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in cytosol	TAS Traceable Author Statement more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
part_of histone deacetylase complex	IBA Inferred from Biological aspect of Ancestor more info
part_of histone deacetylase complex	ISO Inferred from Sequence Orthology more info
located_in inclusion body	ISO Inferred from Sequence Orthology more info
located_in microtubule	ISO Inferred from Sequence Orthology more info
part_of microtubule associated complex	ISO Inferred from Sequence Orthology more info
located_in microtubule cytoskeleton	IDA Inferred from Direct Assay more info	PubMed
located_in neuron projection	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	TAS Traceable Author Statement more info	PubMed
located_in perikaryon	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

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Preferred Names: histone deacetylase 6

Names: histone deacetylase 5; histone deacetylase mHDA2; protein deacetylase HDAC6; scurfy candidate 6; tubulin-lysine deacetylase HDAC6

NP_001123888.1

EC 3.5.1.98

NP_001398533.1

EC 3.5.1.98

NP_001398535.1

EC 3.5.1.98

NP_001398536.1

EC 3.5.1.98

NP_001398537.1

EC 3.5.1.98

NP_001398541.1

EC 3.5.1.98

NP_034543.3

EC 3.5.1.98

XP_017173878.1

EC 3.5.1.98

XP_036017717.1

EC 3.5.1.98

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001130416.2 → NP_001123888.1 histone deacetylase 6 isoform 2

See identical proteins and their annotated locations for NP_001123888.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.

Source sequence(s)

AL670169

Consensus CDS

CCDS40845.1

UniProtKB/Swiss-Prot

B1AUA6, Q9Z2V5

UniProtKB/TrEMBL

Q3U4Q5

Related

ENSMUSP00000111306.2, ENSMUST00000115642.8

Conserved Domains (3) summary

cd10003
Location:484 → 834

HDAC6-dom2; Histone deacetylase 6, domain 2

pfam02148
Location:1067 → 1129

zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

cl17011
Location:98 → 434

Arginase_HDAC; Arginase-like and histone-like hydrolases
NM_001411604.1 → NP_001398533.1 histone deacetylase 6 isoform 1

Status: VALIDATED

Source sequence(s)

AL670169
NM_001411606.1 → NP_001398535.1 histone deacetylase 6 isoform 2

Status: VALIDATED

Source sequence(s)

AL670169

UniProtKB/Swiss-Prot

B1AUA6, Q9Z2V5
NM_001411607.1 → NP_001398536.1 histone deacetylase 6 isoform 2

Status: VALIDATED

Source sequence(s)

AL670169

UniProtKB/Swiss-Prot

B1AUA6, Q9Z2V5
NM_001411608.1 → NP_001398537.1 histone deacetylase 6 isoform 3

Status: VALIDATED

Source sequence(s)

AL670169
NM_001411612.1 → NP_001398541.1 histone deacetylase 6 isoform 4

Status: VALIDATED

Source sequence(s)

AL670169
NM_010413.4 → NP_034543.3 histone deacetylase 6 isoform 2

See identical proteins and their annotated locations for NP_034543.3

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.

Source sequence(s)

AL670169

Consensus CDS

CCDS40845.1

UniProtKB/Swiss-Prot

B1AUA6, Q9Z2V5

UniProtKB/TrEMBL

Q3U4Q5

Related

ENSMUSP00000033501.9, ENSMUST00000033501.15

Conserved Domains (3) summary

cd10003
Location:484 → 834

HDAC6-dom2; Histone deacetylase 6, domain 2

pfam02148
Location:1067 → 1129

zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

cl17011
Location:98 → 434

Arginase_HDAC; Arginase-like and histone-like hydrolases

RNA

NR_177433.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AL670169
NR_177434.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AL670169

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000086.8 Reference GRCm39 C57BL/6J

Range

7796355..7814284 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017318389.3 → XP_017173878.1 histone deacetylase 6 isoform X1

UniProtKB/Swiss-Prot

B1AUA6, Q9Z2V5

UniProtKB/TrEMBL

Q3U4Q5

Conserved Domains (3) summary

cd10003
Location:484 → 834

HDAC6-dom2; Histone deacetylase 6, domain 2

pfam02148
Location:1067 → 1129

zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

cl17011
Location:98 → 434

Arginase_HDAC; Arginase-like and histone-like hydrolases
XM_036161824.1 → XP_036017717.1 histone deacetylase 6 isoform X1

UniProtKB/Swiss-Prot

B1AUA6, Q9Z2V5

UniProtKB/TrEMBL

Q3U4Q5

Conserved Domains (3) summary

cd10003
Location:484 → 834

HDAC6-dom2; Histone deacetylase 6, domain 2

pfam02148
Location:1067 → 1129

zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

cl17011
Location:98 → 434

Arginase_HDAC; Arginase-like and histone-like hydrolases