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    SUVH6 SU(VAR)3-9 homolog 6 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 816804, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SUVH6
    Official Full Name
    SU(VAR)3-9 homolog 6
    Primary source
    TAIR:AT2G22740
    Locus tag
    AT2G22740
    See related
    Araport:AT2G22740
    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
    SDG23; SET DOMAIN PROTEIN 23; SU(VAR)3-9 homolog 6; T9I22.18; T9I22_18
    Summary
    Encodes a SU(VAR)3-9 homolog, a methyltransferase involved in histone methylation. The protein was shown to bind to methylated cytosines of CG, CNG and CNN motifs but has a preference for the latter two. 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 SUVH6 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    3
    Sequence:
    Chromosome: 2; NC_003071.7 (9662638..9667038, complement)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene pseudo Neighboring gene SPT2 chromatin protein Neighboring gene Major facilitator superfamily protein Neighboring gene ncRNA Neighboring gene basic helix-loop-helix (bHLH) DNA-binding superfamily protein Neighboring gene basic helix-loop-helix (bHLH) DNA-binding superfamily 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. Molecular basis of locus-specific H3K9 methylation catalyzed by SUVH6 in plants. Zhang J, et al. Proc Natl Acad Sci U S A, 2023 Jan 3. PMID 36580600, Free PMC Article
    2. Mechanistic insights into plant SUVH family H3K9 methyltransferases and their binding to context-biased non-CG DNA methylation. Li X, et al. Proc Natl Acad Sci U S A, 2018 Sep 11. PMID 30150382, Free PMC Article
    3. miRNA778 and SUVH6 are involved in phosphate homeostasis in Arabidopsis. Wang L, et al. Plant Sci, 2015 Sep. PMID 26259194
    4. Dimethylation of histone H3 lysine 9 is a critical mark for DNA methylation and gene silencing in Arabidopsis thaliana. Jackson JP, et al. Chromosoma, 2004 Mar. PMID 15014946
    5. H3 lysine 9 methylation is maintained on a transcribed inverted repeat by combined action of SUVH6 and SUVH4 methyltransferases. Ebbs ML, et al. Mol Cell Biol, 2005 Dec. PMID 16287862, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Arabidopsis histone H3 lysine 9 methyltransferases KYP/SUVH5/6 are involved in leaf development by interacting with AS1-AS2 to repress KNAT1 and KNAT2.
      Title: Arabidopsis histone H3 lysine 9 methyltransferases KYP/SUVH5/6 are involved in leaf development by interacting with AS1-AS2 to repress KNAT1 and KNAT2.
    2. Data show that H3K9 methyltransferase SUVH6 has a distinct 5-methyl-dC (5mC) base-flipping mechanism involving a thumb loop element.
      Title: Mechanistic insights into plant SUVH family H3K9 methyltransferases and their binding to context-biased non-CG DNA methylation.
    3. 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.
    4. This study identified Arabidopsis miR778, a Pi-responsive miRNA, and its target gene Su(var) 3-9 homologs 6 (SUVH6) encoding a histone H3 lysine 9 (H3K9) methyltransferase.
      Title: miRNA778 and SUVH6 are involved in phosphate homeostasis in Arabidopsis.
    5. H3 lysine 9 methylation is reduced in an suvh4 suvh6 double mutant
      Title: H3 lysine 9 methylation is maintained on a transcribed inverted repeat by combined action of SUVH6 and SUVH4 methyltransferases.
    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_179699.3
    NM_201785.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables methyl-CpG binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables methyl-CpNpG binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables methyl-CpNpN binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables methyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    SU(VAR)3-9 homolog 6
    NP_850030.1
    • SU(VAR)3-9 homolog 6 (SUVH6); FUNCTIONS IN: methyl-CpNpG binding, methyltransferase activity, methyl-CpG binding, methyl-CpNpN binding; INVOLVED IN: histone methylation; LOCATED IN: nucleus; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 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 5 (TAIR:AT2G35160.1); Has 4885 Blast hits to 4696 proteins in 447 species: Archae - 0; Bacteria - 363; Metazoa - 2323; Fungi - 494; Plants - 1133; Viruses - 0; Other Eukaryotes - 572 (source: NCBI BLink).
    NP_973514.1
    • SU(VAR)3-9 homolog 6 (SUVH6); FUNCTIONS IN: methyl-CpNpG binding, methyltransferase activity, methyl-CpG binding, methyl-CpNpN binding; INVOLVED IN: histone methylation; LOCATED IN: nucleus; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 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 5 (TAIR:AT2G35160.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (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
      9662638..9667038 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_201785.1 → NP_973514.1  SU(VAR)3-9 homolog 6 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_973514.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8VZ17, Q9C5P2, Q9ZQ40
      UniProtKB/TrEMBL
      A0A178VTU8
      Conserved Domains (3) summary
      smart00468
      Location:508 → 600
      PreSET; N-terminal to some SET domains
      smart00466
      Location:325 → 486
      SRA; SET and RING finger associated domain
      smart00317
      Location:617 → 763
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

    2. NM_179699.3 → NP_850030.1  SU(VAR)3-9 homolog 6 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_850030.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8VZ17, Q9C5P2, Q9ZQ40
      UniProtKB/TrEMBL
      A0A178VTU8
      Conserved Domains (3) summary
      smart00468
      Location:508 → 600
      PreSET; N-terminal to some SET domains
      smart00466
      Location:325 → 486
      SRA; SET and RING finger associated domain
      smart00317
      Location:617 → 763
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8VZ17.2

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