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HDAC10 histone deacetylase 10 [ Homo sapiens (human) ]

Gene ID: 83933, updated on 11-Apr-2024

Summary

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Official Symbol
HDAC10provided by HGNC
Official Full Name
histone deacetylase 10provided by HGNC
Primary source
HGNC:HGNC:18128
See related
Ensembl:ENSG00000100429 MIM:608544; AllianceGenome:HGNC:18128
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HD10
Summary
The protein encoded by this gene belongs to the histone deacetylase family, members of which deacetylate lysine residues on the N-terminal part of the core histones. Histone deacetylation modulates chromatin structure, and plays an important role in transcriptional regulation, cell cycle progression, and developmental events. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Aug 2011]
Expression
Ubiquitous expression in spleen (RPKM 10.7), bone marrow (RPKM 7.4) and 25 other tissues See more
Orthologs
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Genomic context

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See HDAC10 in Genome Data Viewer
Location:
22q13.33
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 22 NC_000022.11 (50245183..50251265, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 22 NC_060946.1 (50752185..50758268, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (50683612..50689694, complement)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50644205-50644771 Neighboring gene selenoprotein O Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50644772-50645337 Neighboring gene SELENOO antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50645905-50646469 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50658024-50658666 Neighboring gene tubulin gamma complex component 6 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50676935-50677436 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50677437-50677936 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19307 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50682041-50682971 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19309 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13958 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:50685959-50686881 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:50688039-50688885 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13959 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19311 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50697131-50697703 Neighboring gene mitogen-activated protein kinase 12 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50698428-50698928 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13960 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13961 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13962 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13963 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:50700498-50701229 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13964 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13965 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13966 Neighboring gene mitogen-activated protein kinase 11

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Characterization of the Role of Host Cellular Factor Histone Deacetylase 10 during HIV-1 Replication. Ran X, et al. Viruses, 2019 Dec 26. PMID 31888084, Free PMC Article
  2. Histone deacetylase 10 knockout activates chaperone-mediated autophagy and accelerates the decomposition of its substrate. Obayashi H, et al. Biochem Biophys Res Commun, 2020 Feb 26. PMID 31862140
  3. Homology modeling of human histone deacetylase 10 and design of potential selective inhibitors. Ibrahim Uba A, et al. J Biomol Struct Dyn, 2019 Sep. PMID 30204052
  4. Dual role of HDAC10 in lysosomal exocytosis and DNA repair promotes neuroblastoma chemoresistance. Ridinger J, et al. Sci Rep, 2018 Jul 3. PMID 29968769, Free PMC Article
  5. HDAC10 promotes lung cancer proliferation via AKT phosphorylation. Yang Y, et al. Oncotarget, 2016 Sep 13. PMID 27449083, Free PMC Article

See all (50) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Knockdown of HDAC10 inhibits POLE2-mediated DNA damage repair in NSCLC cells by increasing SP1 acetylation levels.
    Title: Knockdown of HDAC10 inhibits POLE2-mediated DNA damage repair in NSCLC cells by increasing SP1 acetylation levels.
  2. Histone deacetylase 10 exerts antitumor effects on cervical cancer via a novel microRNA-223/TXNIP/Wnt/beta-catenin pathway.
    Title: Histone deacetylase 10 exerts antitumor effects on cervical cancer via a novel microRNA-223/TXNIP/Wnt/β-catenin pathway.
  3. Oncogenic miRNA-1908 targets HDAC10 and promotes the aggressive phenotype of cervical cancer cell.
    Title: Oncogenic miRNA-1908 targets HDAC10 and promotes the aggressive phenotype of cervical cancer cell.
  4. Characterization of the Role of Host Cellular Factor Histone Deacetylase 10 during HIV-1 Replication.
    Title: Characterization of the Role of Host Cellular Factor Histone Deacetylase 10 during HIV-1 Replication.
  5. Histone deacetylase 10 knockout activates chaperone-mediated autophagy and accelerates the decomposition of its substrate.
    Title: Histone deacetylase 10 knockout activates chaperone-mediated autophagy and accelerates the decomposition of its substrate.
  6. The free modeled structure of HDAC10 and its complexes with quisinostat and the highest-ranked compound ZINC19749069 were submitted to molecular dynamics simulation.
    Title: Homology modeling of human histone deacetylase 10 and design of potential selective inhibitors.
  7. HDAC10 upregulation contributed to IL-1beta-mediated inflammatory activation of SMSCs.
    Title: HDAC10 upregulation contributes to interleukin 1β-mediated inflammatory activation of synovium-derived mesenchymal stem cells in temporomandibular joint.
  8. Authors show that depleting or inhibiting HDAC10 results in accumulation of lysosomes in chemotherapy-resistant neuroblastoma cell lines, as well as in the intracellular accumulation of the weakly basic chemotherapeutic doxorubicin within lysosomes.
    Title: Dual role of HDAC10 in lysosomal exocytosis and DNA repair promotes neuroblastoma chemoresistance.
  9. HDAC10 structure and molecular function as a polyamine deacetylase has been reported.
    Title: Histone deacetylase 10 structure and molecular function as a polyamine deacetylase.
  10. this study demonstrated that HDAC10 localizes and functions in the cytoplasm of lung cancer cells, thereby underscoring its potential role in the diagnosis and treatment of lung cancer
    Title: HDAC10 promotes lung cancer proliferation via AKT phosphorylation.
Submit: New GeneRIF Correction See all GeneRIFs (26)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Potential readthrough

Included gene: MAPK12

Homology

Clone Names

  • MGC149722, DKFZp761B039

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables acetylputrescine deacetylase activity IEA
Inferred from Electronic Annotation
more info
  
enables acetylspermidine deacetylase activity IEA
Inferred from Electronic Annotation
more info
  
enables deacetylase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables deacetylase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables enzyme binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables histone deacetylase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables histone deacetylase activity TAS
Traceable Author Statement
more info
  
enables histone deacetylase binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
NOT enables protein lysine deacetylase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein lysine deacetylase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables zinc ion binding ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in chromatin organization NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in chromatin remodeling IEA
Inferred from Electronic Annotation
more info
  
involved_in epigenetic regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in homologous recombination IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in macroautophagy IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in polyamine deacetylation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of mismatch repair IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in spermidine deacetylation IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
  
part_of histone deacetylase complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
polyamine deacetylase HDAC10
NP_001152758.1
NP_114408.3

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.

Genomic

  1. NG_029758.1 RefSeqGene

    Range
    5141..11223
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001159286.2 → NP_001152758.1  polyamine deacetylase HDAC10 isoform 2

    See identical proteins and their annotated locations for NP_001152758.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame coding exon compared to variant 1. This results in a shorter isoform (2, also known as beta) missing an internal protein segment compared to isoform 1.
    Source sequence(s)
    AF407273, AF426160, BC094734
    Consensus CDS
    CCDS54545.1
    UniProtKB/TrEMBL
    C9J8B8
    Related
    ENSP00000343540.4, ENST00000349505.4
    Conserved Domains (1) summary
    cl17011
    Location:18 → 334
    Arginase_HDAC; Arginase-like and histone-like hydrolases

  2. NM_032019.6 → NP_114408.3  polyamine deacetylase HDAC10 isoform 1

    See identical proteins and their annotated locations for NP_114408.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the predominant transcript, and encodes the longer isoform (1, also known as alpha).
    Source sequence(s)
    AF426160, BC094734
    Consensus CDS
    CCDS14088.1
    UniProtKB/Swiss-Prot
    Q08AP4, Q6STF9, Q969S8, Q96P77, Q96P78, Q9H028, Q9UGX1, Q9UGX2
    UniProtKB/TrEMBL
    C9J8B8
    Related
    ENSP00000216271.5, ENST00000216271.10
    Conserved Domains (2) summary
    cd11683
    Location:18 → 354
    HDAC10; Histone deacetylase 10
    cl17011
    Location:562 → 634
    Arginase_HDAC; Arginase-like and histone-like hydrolases

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000022.11 Reference GRCh38.p14 Primary Assembly

    Range
    50245183..50251265 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060946.1 Alternate T2T-CHM13v2.0

    Range
    50752185..50758268 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q969S8.1 GenPept UniProtKB/Swiss-Prot:Q969S8

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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