HDAC1 Histone deacetylase 1 [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: HDAC1provided by FlyBase
Official Full Name: Histone deacetylase 1provided by FlyBase
Primary source: FLYBASE:FBgn0015805
Locus tag: Dmel_CG7471
See related: AllianceGenome:FB:FBgn0015805
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Drosophila melanogaster
Lineage: Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as: CG7471; dHDAC-1; dHDAC1; DHDAC1; Dmel\CG7471; dmHDA401; DmHDAC1; DmRpd3; drpd3; dRpd3; dRPD3; DRpd3; E(var)3-64BC; Hdac; HDAC; HDAC-1; hdac1; Hdac1; l(3)04556; l(3)64Cc; rpd3; Rpd3; RPD3; Rpd3/HDAC; rpd[3]; Su(var)3-26; Su(var)3-64B; Su(var)326; Su(var)328
Summary: Enables histone H4K deacetylase activity and transcription corepressor activity. Involved in several processes, including determination of adult lifespan; negative regulation of macromolecule biosynthetic process; and negative regulation of response to gamma radiation. Located in chromatin; nucleus; and polytene chromosome interband. Part of Myb complex; nucleoplasm; and transcription repressor complex. Is expressed in several structures, including Malpighian tubule primordium; embryonic/larval midgut primordium; ganglia; gonad; and imaginal disc. Human ortholog(s) of this gene implicated in stomach cancer. Orthologous to several human genes including HDAC2 (histone deacetylase 2). [provided by Alliance of Genome Resources, Jun 2025]
Orthologs: all
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Genomic context

Location:: 64B12-64B12; 3-12 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	3L	NT_037436.4 (4626734..4629467)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	3L	NT_037436.3 (4626734..4629467)

Chromosome 3L - NT_037436.4 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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Nutritional stress-induced regulation of microtubule organization and mRNP transport by HDAC1 controlled alpha-tubulin acetylation.
Title: Nutritional stress-induced regulation of microtubule organization and mRNP transport by HDAC1 controlled α-tubulin acetylation.
Identification of Rpd3 as a novel epigenetic regulator of Drosophila FIG 4, a Charcot-Marie-Tooth disease-causing gene.
Title: Identification of Rpd3 as a novel epigenetic regulator of Drosophila FIG 4, a Charcot-Marie-Tooth disease-causing gene.
Inactivating histone deacetylase HDA promotes longevity by mobilizing trehalose metabolism.
Title: Inactivating histone deacetylase HDA promotes longevity by mobilizing trehalose metabolism.
Rpd3/CoRest-mediated activity-dependent transcription regulates the flexibility in memory updating in Drosophila.
Title: Rpd3/CoRest-mediated activity-dependent transcription regulates the flexibility in memory updating in Drosophila.
The Mi-2 nucleosome remodeler and the Rpd3 histone deacetylase are involved in piRNA-guided heterochromatin formation.
Title: The Mi-2 nucleosome remodeler and the Rpd3 histone deacetylase are involved in piRNA-guided heterochromatin formation.
The functional reduction of Rpd3 rescued the deficient locomotive ability and aberrant morphology of motoneurons induced by the dSLC25A46 knockdown.
Title: Reduction of Rpd3 suppresses defects in locomotive ability and neuronal morphology induced by the knockdown of Drosophila SLC25A46 via an epigenetic pathway.
The effects of the interaction of Rpd3 and Loco on longevity in D. melanogaster are reported.
Title: Longer lifespan in the Rpd3 and Loco signaling results from the reduced catabolism in young age with noncoding RNA.
Fuss interacts with Rpd3, and downregulation of rpd3 in gustatory neurons phenocopies the loss of Fuss expression. Surprisingly, there is no colocalization of Fuss with phosphorylated Mad in the larval central nervous system, excluding a direct involvement of Fuss in Dpp/BMP signaling.
Title: The Drosophila fussel gene is required for bitter gustatory neuron differentiation acting within an Rpd3 dependent chromatin modifying complex.
aken together, these results reveal that inactivation of Rpd3 independently regulates JNK and Yki activities and that both Hippo and JNK signaling pathways contribute to Rpd3 RNAi-induced apoptosis.
Title: Loss of histone deacetylase HDAC1 induces cell death in Drosophila epithelial cells through JNK and Hippo signaling.
Rpd3 accumulates in the nucleolus in the early stage of starvation, upregulates rRNA synthesis, maintains the polysome amount for translation, and finally increases stress tolerance proteins, such as autophagy-related proteins, to acquire starvation stress resistance.
Title: The Histone Deacetylase Gene Rpd3 Is Required for Starvation Stress Resistance.

Submit: New GeneRIF Correction See all GeneRIFs (28)

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

Dm0562 (e-PCR)
- UniSTS:46511

Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by FlyBase

Function	Evidence Code	Pubs
enables histone H4K12 deacetylase activity, hydrolytic mechanism	IDA Inferred from Direct Assay more info	PubMed
enables histone H4K16 deacetylase activity, hydrolytic mechanism	IDA Inferred from Direct Assay more info	PubMed
enables histone H4K5 deacetylase activity, hydrolytic mechanism	IDA Inferred from Direct Assay more info	PubMed
enables histone H4K8 deacetylase activity, hydrolytic mechanism	IDA Inferred from Direct Assay more info	PubMed
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	IEA Inferred from Electronic Annotation more info
enables histone deacetylase activity	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables histone deacetylase activity	NAS Non-traceable Author Statement more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription corepressor activity	IPI Inferred from Physical Interaction more info	PubMed
enables transcription corepressor activity	NAS Non-traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in blastoderm segmentation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chromosome condensation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of dendrite guidance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in determination of adult lifespan	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in determination of adult lifespan	TAS Traceable Author Statement more info	PubMed
involved_in heterochromatin formation	IBA Inferred from Biological aspect of Ancestor more info
involved_in heterochromatin formation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in heterochromatin formation	IPI Inferred from Physical Interaction more info	PubMed
involved_in negative regulation of DNA-templated transcription	IEP Inferred from Expression Pattern more info	PubMed
involved_in negative regulation of DNA-templated transcription	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of DNA-templated transcription	NAS Non-traceable Author Statement more info	PubMed
acts_upstream_of negative regulation of axonogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of gene expression, epigenetic	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of response to gamma radiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of smoothened signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of smoothened signaling pathway	IPI Inferred from Physical Interaction more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in oogenesis	TAS Traceable Author Statement more info	PubMed
involved_in regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of neuroblast proliferation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of neuroblast proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transposable element silencing by piRNA-mediated heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of ESC/E(Z) complex	IDA Inferred from Direct Assay more info	PubMed
part_of Myb complex	IDA Inferred from Direct Assay more info	PubMed
part_of NuRD complex	IBA Inferred from Biological aspect of Ancestor more info
part_of NuRD complex	IPI Inferred from Physical Interaction more info	PubMed
part_of NuRD complex	NAS Non-traceable Author Statement more info	PubMed
part_of Sin3-type complex	IDA Inferred from Direct Assay more info	PubMed
part_of Sin3-type complex	NAS Non-traceable Author Statement more info	PubMed
located_in chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in polytene chromosome	IDA Inferred from Direct Assay more info	PubMed
located_in polytene chromosome interband	IDA Inferred from Direct Assay more info	PubMed
part_of transcription repressor complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

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Preferred Names: histone deacetylase 1

Names: CG7471-PA; HDAC1-PA; Rpd3; Rpd3 histone deacetylase; histone Deacetylase-1; histone deacetylase; histone deacetylase 1 (HDAC1); histone deacetylase RPD3; reduced potassium dependency 3; suppressor of variegation 326