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hda-1 Histone deacetylase 1 [ Caenorhabditis elegans ]

Gene ID: 179959, updated on 2-Nov-2024

Summary

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Official Symbol
hda-1
Official Full Name
Histone deacetylase 1
Primary source
WormBase:WBGene00001834
Locus tag
CELE_C53A5.3
See related
AllianceGenome:WB:WBGene00001834
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Caenorhabditis elegans (strain: Bristol N2)
Lineage
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary
Enables RNA polymerase II-specific DNA-binding transcription factor binding activity and histone deacetylase activity. Contributes to transcription corepressor activity. Involved in several processes, including negative regulation of signal transduction; negative regulation of stress response to copper ion; and regulation of transcription by RNA polymerase II. Acts upstream of or within chromatin organization; determination of adult lifespan; and mitochondrial unfolded protein response. Located in chromatin; cytoplasm; and germ cell nucleus. Part of NuRD complex. Is expressed in several structures, including anchor cell; germ line; hypodermis; nervous system; and vulva. Human ortholog(s) of this gene implicated in stomach cancer. Orthologous to human HDAC1 (histone deacetylase 1) and HDAC2 (histone deacetylase 2). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See hda-1 in Genome Data Viewer
Location:
chromosome: V
Exon count:
4
Sequence:
Chromosome: V; NC_003283.11 (14525389..14527411)

Chromosome V - NC_003283.11Genomic Context describing neighboring genes Neighboring gene RNAi-Induced Longevity Neighboring gene ncRNA Neighboring gene Calmodulin-binding domain-containing protein Neighboring gene Protein kinase domain-containing protein Neighboring gene ncRNA

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003283.11

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. The C. elegans histone deacetylase HDA-1 is required for cell migration and axon pathfinding. Zinovyeva AY, et al. Dev Biol, 2006 Jan 1. PMID 16313898
  2. HDAC1 SUMOylation promotes Argonaute-directed transcriptional silencing in C. elegans. Kim H, et al. Elife, 2021 May 18. PMID 34003109, Free PMC Article
  3. 4-Phenylbutyric acid attenuates amyloid-β proteotoxicity through activation of HSF-1 in an Alzheimer's disease model of the nematode Caenorhabditiselegans. Baumanns S, et al. Biochem Biophys Res Commun, 2023 Sep 17. PMID 37354655
  4. Invasive Cell Fate Requires G1 Cell-Cycle Arrest and Histone Deacetylase-Mediated Changes in Gene Expression. Matus DQ, et al. Dev Cell, 2015 Oct 26. PMID 26506306, Free PMC Article
  5. Deletion of a putative HDA-1 binding site in the hlh-2 promoter eliminates expression in C. elegans dorsal uterine cells. Medwig-Kinney TN, et al. MicroPubl Biol, 2021. PMID 34514358, Free PMC Article

See all (83) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The chromatin factors SET-26 and HCF-1 oppose the histone deacetylase HDA-1 in longevity and gene regulation in C. elegans.
    Title: The chromatin factors SET-26 and HCF-1 oppose the histone deacetylase HDA-1 in longevity and gene regulation in C. elegans.
  2. HDAC1 SUMOylation promotes Argonaute-directed transcriptional silencing in C. elegans.
    Title: HDAC1 SUMOylation promotes Argonaute-directed transcriptional silencing in C. elegans.
  3. Inactivating histone deacetylase HDA promotes longevity by mobilizing trehalose metabolism.
    Title: Inactivating histone deacetylase HDA promotes longevity by mobilizing trehalose metabolism.
  4. Histone deacetylase HDA-1 modulates mitochondrial stress response and longevity.
    Title: Histone deacetylase HDA-1 modulates mitochondrial stress response and longevity.
  5. We further show that G1 arrest is necessary for the histone deacetylase HDA-1, a key regulator of differentiation, to promote pro-invasive gene expression and invadopodia formation.
    Title: Invasive Cell Fate Requires G1 Cell-Cycle Arrest and Histone Deacetylase-Mediated Changes in Gene Expression.
  6. hda-1 target genes revealed that fos-1 acts downstream of hda-1 in vulval cells, whereas egl-43 and nhr-67 mediate hda-1 function in the gonadal anchor cell.
    Title: Caenorhabditis elegans histone deacetylase hda-1 is required for morphogenesis of the vulva and LIN-12/Notch-mediated specification of uterine cell fates.
  7. HDAC behaves as a co-repressor modulating FOS-1-mediated transcriptional regulation
    Title: The Caenorhabditis elegans JNK signaling pathway activates expression of stress response genes by derepressing the Fos/HDAC repressor complex.
  8. Theses studies define a new role for HDA-1 in nervous system development, and provide the first evidence for HDAC function in regulating neuronal axon guidance.
    Title: The C. elegans histone deacetylase HDA-1 is required for cell migration and axon pathfinding.
Submit: New GeneRIF Correction

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

Homology

Gene Ontology Provided by WormBase

Function Evidence Code Pubs
enables RNA polymerase II-specific DNA-binding transcription factor binding IPI
Inferred from Physical Interaction
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 hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
contributes_to transcription corepressor activity IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in cell differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in chromatin organization IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within chromatin organization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within determination of adult lifespan IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in embryo development ending in birth or egg hatching IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in embryonic digestive tract morphogenesis IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in gonad development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in hermaphrodite somatic sex determination IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in heterochromatin formation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within mitochondrial unfolded protein response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of Notch signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of Ras protein signal transduction IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in negative regulation of stress response to copper ion IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of vulval development IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in negative regulation of vulval development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in nematode male tail tip morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of cell differentiation IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in regulation of cell migration IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of innate immune response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of NuRD complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of NuRD complex IMP
Inferred from Mutant Phenotype
more info
 PubMed 
part_of NuRD complex IPI
Inferred from Physical Interaction
more info
 PubMed 
located_in chromatin IDA
Inferred from Direct Assay
more info
 PubMed 
located_in chromosome IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in germ cell nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
part_of histone deacetylase complex IPI
Inferred from Physical Interaction
more info
 PubMed 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IMP
Inferred from Mutant Phenotype
more info
 PubMed 

General protein information

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Preferred Names
Histone deacetylase 1
NP_506599.1
  • Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

  1. NC_003283.11 Reference assembly

    Range
    14525389..14527411
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_074198.10 → NP_506599.1  Histone deacetylase 1 [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_506599.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    O17695
    Conserved Domains (1) summary
    cd09991
    Location:18 → 323
    HDAC_classI; Class I histone deacetylases
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O17695.1

Gene LinkOut

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