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    SUVH5 SU(VAR)3-9 homolog 5 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 818083, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SUVH5
    Official Full Name
    SU(VAR)3-9 homolog 5
    Primary source
    TAIR:AT2G35160
    Locus tag
    AT2G35160
    See related
    Araport:AT2G35160
    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
    SET DOMAIN-CONTAINING PROTEIN 9; SGD9; SU(VAR)3-9 homolog 5; T4C15.17; T4C15_17
    Summary
    Encodes SU(var)3-9 homologue 5 (SUVH5). SUVH5 has histone methyltransferase (MTase) activity in vitro and contributes to the maintenance of H3 mK9 (methylation of histone H3 at Lys-9) and CMT3-mediated non-CG methylation in vivo. This is a member of a subfamily of SET proteins that shares a conserved SRA domain.
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    Genomic context

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    See SUVH5 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    3
    Sequence:
    Chromosome: 2; NC_003071.7 (14822774..14826194)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene EXORDIUM like 7 Neighboring gene Trypsin family protein Neighboring gene ncRNA Neighboring gene Histone H3 K4-specific methyltransferase SET7/9 family protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. A dual flip-out mechanism for 5mC recognition by the Arabidopsis SUVH5 SRA domain and its impact on DNA methylation and H3K9 dimethylation in vivo. Rajakumara E, et al. Genes Dev, 2011 Jan 15. PMID 21245167, Free PMC Article
    2. Locus-specific control of DNA methylation by the Arabidopsis SUVH5 histone methyltransferase. Ebbs ML, et al. Plant Cell, 2006 May. PMID 16582009, Free PMC Article
    3. HISTONE DEACETYLASE6 Acts in Concert with Histone Methyltransferases SUVH4, SUVH5, and SUVH6 to Regulate Transposon Silencing. Yu CW, et al. Plant Cell, 2017 Aug. PMID 28778955, Free PMC Article
    4. The Arabidopsis thaliana genome contains at least 29 active genes encoding SET domain proteins that can be assigned to four evolutionarily conserved classes. Baumbusch LO, et al. Nucleic Acids Res, 2001 Nov 1. PMID 11691919, Free PMC Article
    5. CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping. Wanamaker SA, et al. Nat Methods, 2017 Aug. PMID 28650476, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. the histone deacetylase HDA6 can interact with the histone methyltransferases SUVH4, SUVH5, and SUVH6 (SUVH4/5/6).
      Title: HISTONE DEACETYLASE6 Acts in Concert with Histone Methyltransferases SUVH4, SUVH5, and SUVH6 to Regulate Transposon Silencing.
    2. a functional SUVH5 SRA domain is required for both DNA methylation and accumulation of the H3K9 dimethyl modification in vivo, suggesting a role for the SRA domain in recruitment of SUVH5 to genomic loci.
      Title: A dual flip-out mechanism for 5mC recognition by the Arabidopsis SUVH5 SRA domain and its impact on DNA methylation and H3K9 dimethylation in vivo.
    3. SUVH5 protein has histone methyltransferase activity in vitro and contributes to the maintenance of methylation of histone H3 at Lysine-9 and CMT3-mediated non-CG methylation in vivo.
      Title: Locus-specific control of DNA methylation by the Arabidopsis SUVH5 histone methyltransferase.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001336547.1
    NM_001336548.1
    NM_001336549.1
    NM_001336550.1
    NM_129070.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables double-stranded methylated DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone methyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone methyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within epigenetic regulation of gene expression TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of gene expression via chromosomal CpG island methylation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within regulatory ncRNA-mediated heterochromatin formation IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of histone acetyltransferase complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    SU(VAR)3-9 homolog 5
    NP_181061.1
    • SU(VAR)3-9 homolog 5 (SUVH5); FUNCTIONS IN: histone methyltransferase activity; INVOLVED IN: maintenance of DNA methylation, histone methylation, regulation of gene expression, epigenetic, response to chitin, chromatin silencing by small RNA; LOCATED IN: nucleus; EXPRESSED IN: 13 plant structures; EXPRESSED DURING: 7 growth stages; CONTAINS InterPro DOMAIN/s: SET domain (InterPro:IPR001214), SRA-YDG (InterPro:IPR003105), Pre-SET zinc-binding sub-group (InterPro:IPR003606), Pre-SET domain (InterPro:IPR007728), Post-SET domain (InterPro:IPR003616); BEST Arabidopsis thaliana protein match is: SU(VAR)3-9 homolog 6 (TAIR:AT2G22740.1); Has 5295 Blast hits to 5101 proteins in 461 species: Archae - 0; Bacteria - 388; Metazoa - 2414; Fungi - 548; Plants - 1120; Viruses - 0; Other Eukaryotes - 825 (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_003071.7 Reference assembly

      Range
      14822774..14826194
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_129070.3 → NP_181061.1  SU(VAR)3-9 homolog 5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_181061.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O82175
      UniProtKB/TrEMBL
      A0A178VMZ6, A0A654EZ05
      Conserved Domains (2) summary
      smart00466
      Location:360 → 519
      SRA; SET and RING finger associated domain
      cl40432
      Location:565 → 765
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

    2. NM_001336547.1 → NP_001324389.1  SU(VAR)3-9 homolog 5 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O82175
      UniProtKB/TrEMBL
      A0A178VMZ6, A0A654EZ05
      Conserved Domains (2) summary
      smart00466
      Location:360 → 519
      SRA; SET and RING finger associated domain
      cl40432
      Location:565 → 765
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

    3. NM_001336548.1 → NP_001324388.1  SU(VAR)3-9 homolog 5 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O82175
      UniProtKB/TrEMBL
      A0A178VMZ6, A0A654EZ05
      Conserved Domains (2) summary
      smart00466
      Location:360 → 519
      SRA; SET and RING finger associated domain
      cl40432
      Location:565 → 765
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

    4. NM_001336550.1 → NP_001324387.1  SU(VAR)3-9 homolog 5 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8AZY9, A0A654EZ05

    5. NM_001336549.1 → NP_001324386.1  SU(VAR)3-9 homolog 5 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O82175
      UniProtKB/TrEMBL
      A0A178VMZ6, A0A654EZ05
      Conserved Domains (2) summary
      smart00466
      Location:360 → 519
      SRA; SET and RING finger associated domain
      cl40432
      Location:565 → 765
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O82175.1

    Gene LinkOut

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