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    clr3 class 2 histone deacetylase Clr3 [ Schizosaccharomyces pombe (fission yeast) ]

    Gene ID: 2540821, updated on 18-Sep-2024

    Summary

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    Official Symbol
    clr3
    Official Full Name
    class 2 histone deacetylase Clr3
    Primary source
    PomBase:SPBC800.03
    Locus tag
    SPOM_SPBC800.03
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Schizosaccharomyces pombe (strain: 972h-)
    Lineage
    Eukaryota; Fungi; Dikarya; Ascomycota; Taphrinomycotina; Schizosaccharomycetes; Schizosaccharomycetales; Schizosaccharomycetaceae; Schizosaccharomyces
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    Genomic context

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    See clr3 in Genome Data Viewer
    Location:
    chromosome: II
    Exon count:
    1
    Sequence:
    Chromosome: II; NC_003423.3 (254686..257138)

    Chromosome II - NC_003423.3Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene GTP-binding protein Bms1 Neighboring gene cell cycle transcriptional repressor Whi5 Neighboring gene ncRNA Neighboring gene tRNA-Gln Neighboring gene tRNA-Gln

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003423.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Combinatorial, site-specific requirement for heterochromatic silencing factors in the elimination of nucleosome-free regions. Garcia JF, et al. Genes Dev, 2010 Aug 15. PMID 20675407, Free PMC Article
    2. Spt6 prevents transcription-coupled loss of posttranslationally modified histone H3. Kato H, et al. Sci Rep, 2013. PMID 23851719, Free PMC Article
    3. Histone deacetylation promotes transcriptional silencing at facultative heterochromatin. Watts BR, et al. Nucleic Acids Res, 2018 Jun 20. PMID 29618061, Free PMC Article
    4. Heterochromatin assembly and transcriptome repression by Set1 in coordination with a class II histone deacetylase. Lorenz DR, et al. Elife, 2014 Dec 15. PMID 25497836, Free PMC Article
    5. Global effects on gene expression in fission yeast by silencing and RNA interference machineries. Hansen KR, et al. Mol Cell Biol, 2005 Jan. PMID 15632061, Free PMC Article

    See all (72) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Heterochromatin assembly and transcriptome repression is mediated by Set1 in coordination with Clr3.
      Title: Heterochromatin assembly and transcriptome repression by Set1 in coordination with a class II histone deacetylase.
    2. Gcn5 is predominantly localized to coding regions of highly transcribed genes, where it collaborates antagonistically with the class-II histone deacetylase, Clr3, to modulate H3K14ac levels and transcriptional elongation.
      Title: HAT-HDAC interplay modulates global histone H3K14 acetylation in gene-coding regions during stress.
    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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    Homology

    Gene Ontology Provided by PomBase

    Function Evidence Code Pubs
    enables histone H3K14 deacetylase activity EXP
    Inferred from Experiment
    more info
    		 PubMed 
    enables histone H3K14 deacetylase activity IMP
    Inferred from Mutant Phenotype
    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 protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in epigenetic regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in epigenetic regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in pericentric heterochromatin formation EXP
    Inferred from Experiment
    more info
    		 PubMed 
    involved_in pericentric heterochromatin formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in rDNA heterochromatin formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in siRNA-independent facultative heterochromatin formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in silent mating-type cassette heterochromatin formation EXP
    Inferred from Experiment
    more info
    		 PubMed 
    involved_in silent mating-type cassette heterochromatin formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in subtelomeric heterochromatin formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of SHREC complex EXP
    Inferred from Experiment
    more info
    		 PubMed 
    part_of SHREC complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in chromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in chromosome, telomeric repeat region IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in euchromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in heterochromatin island IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of histone deacetylase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in mating-type region heterochromatin EXP
    Inferred from Experiment
    more info
    		 PubMed 
    is_active_in mating-type region heterochromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nucleus HDA PubMed 
    is_active_in pericentric heterochromatin EXP
    Inferred from Experiment
    more info
    		 PubMed 
    is_active_in pericentric heterochromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in rDNA heterochromatin EXP
    Inferred from Experiment
    more info
    		 PubMed 
    is_active_in rDNA heterochromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in subtelomeric heterochromatin EXP
    Inferred from Experiment
    more info
    		 PubMed 
    is_active_in subtelomeric heterochromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    class 2 histone deacetylase Clr3

    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_003423.3 Reference assembly

      Range
      254686..257138
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001021011.3 → NP_595104.1  class 2 histone deacetylase Clr3 [Schizosaccharomyces pombe]

      See identical proteins and their annotated locations for NP_595104.1

      Status: PROVISIONAL

      UniProtKB/Swiss-Prot
      P56523
      Conserved Domains (2) summary
      cd11600
      Location:75 → 392
      HDAC_Clr3; Class II Histone deacetylase Clr3 and similar proteins
      pfam09757
      Location:398 → 562
      Arb2; Arb2 domain
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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