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    HDA18 histone deacetylase of the RPD3/HDA1 superfamily 18 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 836228, updated on 18-Sep-2024

    Summary

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    Official Symbol
    HDA18
    Official Full Name
    histone deacetylase of the RPD3/HDA1 superfamily 18
    Primary source
    TAIR:AT5G61070
    Locus tag
    AT5G61070
    See related
    Araport:AT5G61070
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    A. THALIANA HISTONE DEACETYLASE OF THE RPD3/HDA1 SUPERFAMILY 18; ATHDA18; histone deacetylase of the RPD3/HDA1 superfamily 18; MAF19.8; MAF19_8
    Summary
    Encodes a protein with similarity to histone deacetylases, a class of chromatin remodeling factors which act on H3/H4 histones. Expressed in roots where it appears to regulate the expression of epidermal cell fate genes controlling hair cell differentiation.
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    Genomic context

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    See HDA18 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    8
    Sequence:
    Chromosome: 5; NC_003076.8 (24571095..24574387, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene histone deacetylase-related / HD-like protein Neighboring gene histone deacetylase 5 Neighboring gene Polynucleotidyl transferase, ribonuclease H-like superfamily protein Neighboring gene uncharacterized protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Histone acetylation affects expression of cellular patterning genes in the Arabidopsis root epidermis. Xu CR, et al. Proc Natl Acad Sci U S A, 2005 Oct 4. PMID 16176989, Free PMC Article
    2. HDA18 affects cell fate in Arabidopsis root epidermis via histone acetylation at four kinase genes. Liu C, et al. Plant Cell, 2013 Jan. PMID 23362208, Free PMC Article
    3. Photoperiodic regulation of flowering time through periodic histone deacetylation of the florigen gene FT. Gu X, et al. PLoS Biol, 2013 Sep. PMID 24019760, Free PMC Article
    4. Structure of Arabidopsis HISTONE DEACETYLASE15. Chen CY, et al. Plant Physiol, 2020 Nov. PMID 32878973, Free PMC Article
    5. Analysis of histone acetyltransferase and histone deacetylase families of Arabidopsis thaliana suggests functional diversification of chromatin modification among multicellular eukaryotes. Pandey R, et al. Nucleic Acids Res, 2002 Dec 1. PMID 12466527, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_125500.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables histone acetyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables histone deacetylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone deacetylase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables zinc ion binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within chromatin remodeling ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of epidermal cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within root epidermal cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    histone deacetylase of the RPD3/HDA1 superfamily 18
    NP_200915.2
    • histone deacetylase of the RPD3/HDA1 superfamily 18 (HDA18); CONTAINS InterPro DOMAIN/s: Histone deacetylase superfamily (InterPro:IPR000286); BEST Arabidopsis thaliana protein match is: histone deacetylase 5 (TAIR:AT5G61060.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).

    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_003076.8 Reference assembly

      Range
      24571095..24574387 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_125500.3 → NP_200915.2  histone deacetylase of the RPD3/HDA1 superfamily 18 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_200915.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8LRK8
      UniProtKB/TrEMBL
      A0A178UIX1, A0A5S9YI91, A0A654GDE3
      Conserved Domains (2) summary
      COG1196
      Location:371 → 632
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cl17011
      Location:64 → 416
      Arginase_HDAC; Arginase-like and histone-like hydrolases
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8LRK8.1

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