HDAC10 histone deacetylase 10 [Homo sapiens (human)] - Gene

Summary

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: mouse all
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Genomic context

Location:: 22q13.33

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	22	NC_000022.11 (50245183..50251265, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	22	NC_060946.1 (50752185..50758268, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	22	NC_000022.10 (50683612..50689694, complement)

Chromosome 22 - NC_000022.11 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: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Short communication: TNF-alpha and IGF-1 regulates epigenetic mechanisms of HDAC2 and HDAC10.
Title: Short communication: TNF-α and IGF-1 regulates epigenetic mechanisms of HDAC2 and HDAC10.
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.
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.
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.
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.
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.
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.
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.
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.
HDAC10 structure and molecular function as a polyamine deacetylase has been reported.
Title: Histone deacetylase 10 structure and molecular function as a polyamine deacetylase.

Submit: New GeneRIF Correction See all GeneRIFs (27)

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 EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH65991 (e-PCR)
- UniSTS:85026

WI-14130 (e-PCR)
- UniSTS:50285

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 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

EC 3.5.1.48

EC 3.5.1.62

NP_114408.3

EC 3.5.1.48

EC 3.5.1.62

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

NG_029758.1 RefSeqGene

Range

5141..11223

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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