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    HIRA histone chaperone HIRA-like protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 823578, updated on 18-Sep-2024

    Summary

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    Official Symbol
    HIRA
    Official Full Name
    histone chaperone HIRA-like protein
    Primary source
    TAIR:AT3G44530
    Locus tag
    AT3G44530
    See related
    Araport:AT3G44530
    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
    homolog of histone chaperone HIRA
    Summary
    Encodes a nuclear localized WD-repeat containing protein involved in negative regulation of knox gene expression via epigenetic mechanism of chromatin re-organization. Interacts physically and genetically with AS1. Expressed in meristem and leaf primordia. Homozygous mutants are embryo lethal. Phenotype of cosuppressed lines is variable but show effects on leaf development similar to as1/as2.
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    Genomic context

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    See HIRA in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    11
    Sequence:
    Chromosome: 3; NC_003074.8 (16115498..16121534)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene alpha/beta-Hydrolases superfamily protein Neighboring gene miscRNA Neighboring gene ncRNA Neighboring gene fatty acid reductase 4 Neighboring gene ncRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. The Histone Chaperone HIRA Is a Positive Regulator of Seed Germination. Layat E, et al. Int J Mol Sci, 2021 Apr 14. PMID 33919775, Free PMC Article
    2. The histone chaperone complex HIR maintains nucleosome occupancy and counterbalances impaired histone deposition in CAF-1 complex mutants. Duc C, et al. Plant J, 2015 Mar. PMID 25600486
    3. The HIRA complex that deposits the histone H3.3 is conserved in Arabidopsis and facilitates transcriptional dynamics. Nie X, et al. Biol Open, 2014 Aug 1. PMID 25086063, Free PMC Article
    4. Maize rough sheath2 and its Arabidopsis orthologue ASYMMETRIC LEAVES1 interact with HIRA, a predicted histone chaperone, to maintain knox gene silencing and determinacy during organogenesis. Phelps-Durr TL, et al. Plant Cell, 2005 Nov. PMID 16243907, Free PMC Article
    5. A Pan-plant Protein Complex Map Reveals Deep Conservation and Novel Assemblies. McWhite CD, et al. Cell, 2020 Apr 16. PMID 32191846, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The Histone Chaperone HIRA Is a Positive Regulator of Seed Germination.
      Title: The Histone Chaperone HIRA Is a Positive Regulator of Seed Germination.
    2. Loss of HIRA reduces extractable histone H3 protein levels and decreases nucleosome occupancy at both actively transcribed genes and heterochromatic regions.
      Title: The histone chaperone complex HIR maintains nucleosome occupancy and counterbalances impaired histone deposition in CAF-1 complex mutants.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    • At3g44530_Arabidopsis_lyrata_ssp._lyrata_CAN10 (e-PCR)
    • At3g44530_Arabidopsis_lyrata_ssp._petraea_GER10 (e-PCR)

    Homology

    NM_001339149.1
    NM_001339150.1
    NM_001339151.1
    NM_114321.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within negative regulation of gene expression, epigenetic TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within nucleosome assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleolus 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
    		  
    located_in rDNA protrusion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    histone chaperone HIRA-like protein
    NP_001319681.1
    • homolog of histone chaperone HIRA (HIRA); CONTAINS InterPro DOMAIN/s: WD40 repeat 2 (InterPro:IPR019782), TUP1-like enhancer of split (InterPro:IPR011494), WD40 repeat, conserved site (InterPro:IPR019775), WD40 repeat (InterPro:IPR001680), WD40 repeat-like-containing domain (InterPro:IPR011046), WD40-repeat-containing domain (InterPro:IPR017986), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), WD40 repeat, subgroup (InterPro:IPR019781); BEST Arabidopsis thaliana protein match is: Transducin/WD40 repeat-like superfamily protein (TAIR:AT5G64630.2).
    NP_190039.2
    • homolog of histone chaperone HIRA (HIRA); CONTAINS InterPro DOMAIN/s: WD40 repeat 2 (InterPro:IPR019782), TUP1-like enhancer of split (InterPro:IPR011494), WD40 repeat, conserved site (InterPro:IPR019775), WD40 repeat (InterPro:IPR001680), WD40 repeat-like-containing domain (InterPro:IPR011046), WD40-repeat-containing domain (InterPro:IPR017986), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), WD40 repeat, subgroup (InterPro:IPR019781); BEST Arabidopsis thaliana protein match is: Transducin/WD40 repeat-like superfamily protein (TAIR:AT5G64630.2); 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_003074.8 Reference assembly

      Range
      16115498..16121534
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001339149.1 → NP_001319681.1  histone chaperone HIRA-like protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4J343, Q9LXN4
      UniProtKB/TrEMBL
      A0A178VBW4, A0A5S9XHW4, A0A654FCN3, F4J344
      Conserved Domains (3) summary
      cd00200
      Location:11 → 359
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      sd00039
      Location:16 → 64
      7WD40; WD40 repeat [structural motif]
      pfam07569
      Location:681 → 873
      Hira; TUP1-like enhancer of split

    2. NM_001339150.1 → NP_001326052.1  histone chaperone HIRA-like protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN40, A0A654FCN3

    3. NM_001339151.1 → NP_001326053.1  histone chaperone HIRA-like protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN41

    4. NM_114321.3 → NP_190039.2  histone chaperone HIRA-like protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_190039.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A654FCN3
      Conserved Domains (4) summary
      COG2319
      Location:4 → 359
      WD40; WD40 repeat [General function prediction only]
      cd00200
      Location:11 → 359
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      pfam07569
      Location:680 → 907
      Hira; TUP1-like enhancer of split
      sd00039
      Location:16 → 64
      7WD40; WD40 repeat [structural motif]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LXN4.2

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