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    SKB1 SHK1 binding protein 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 829240, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SKB1
    Official Full Name
    SHK1 binding protein 1
    Primary source
    TAIR:AT4G31120
    Locus tag
    AT4G31120
    See related
    Araport:AT4G31120
    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
    ATPRMT5; calcium underaccumulation 1; CAU1; F6E21.40; F6E21_40; PRMT5; PROTEIN ARGININE METHYLTRANSFERASE 5; SHK1 binding protein 1
    Summary
    Involved in vernalization. Required for epigenetic silencing of FLC, and for vernalization-mediated histone modification.
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    Genomic context

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    See SKB1 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    22
    Sequence:
    Chromosome: 4; NC_003075.7 (15132011..15136696, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene wall-associated kinase Neighboring gene Wall-associated kinase family protein Neighboring gene DUF1997 family protein, putative (DUF1997) Neighboring gene keratin-associated protein (DUF1218) Neighboring gene O-Glycosyl hydrolases family 17 protein Neighboring gene endonuclease V family protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003075.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Light controls mesophyll-specific post-transcriptional splicing of photoregulatory genes by AtPRMT5. Yan Y, et al. Proc Natl Acad Sci U S A, 2024 Feb 6. PMID 38285953, Free PMC Article
    2. Arginine methylation mediated by the Arabidopsis homolog of PRMT5 is essential for proper pre-mRNA splicing. Deng X, et al. Proc Natl Acad Sci U S A, 2010 Nov 2. PMID 20956294, Free PMC Article
    3. Nitric Oxide Regulates Protein Methylation during Stress Responses in Plants. Hu J, et al. Mol Cell, 2017 Aug 17. PMID 28757206
    4. AtPRMT5 Regulates Shoot Regeneration through Mediating Histone H4R3 Dimethylation on KRPs and Pre-mRNA Splicing of RKP in Arabidopsis. Liu H, et al. Mol Plant, 2016 Dec 5. PMID 27780782
    5. Type II protein arginine methyltransferase 5 (PRMT5) is required for circadian period determination in Arabidopsis thaliana. Hong S, et al. Proc Natl Acad Sci U S A, 2010 Dec 7. PMID 21097700, Free PMC Article

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Arabidopsis AGO1 N-terminal extension acts as an essential hub for PRMT5 interaction and post-translational modifications.
      Title: Arabidopsis AGO1 N-terminal extension acts as an essential hub for PRMT5 interaction and post-translational modifications.
    2. SISTER OF FCA physically associates with SKB1 to regulate flowering time in Arabidopsis thaliana.
      Title: SISTER OF FCA physically associates with SKB1 to regulate flowering time in Arabidopsis thaliana.
    3. Light controls mesophyll-specific post-transcriptional splicing of photoregulatory genes by AtPRMT5.
      Title: Light controls mesophyll-specific post-transcriptional splicing of photoregulatory genes by AtPRMT5.
    4. The transcript level of CAU1 decreased while that of ANAC055 (encoding a transcription factor) increased in wild-type Arabidopsis under drought stress. Further analyses showed that CAU1 bound to the promoter of ANAC055 and suppressed its expression via H4R3sme2-type histone methylation in the promoter region.
      Title: Control of proline accumulation under drought via a novel pathway comprising the histone methylase CAU1 and the transcription factor ANAC055.
    5. PRMT5 directs symmetric arginine dimethylation of AGO2.PRMT5 is down-regulated by bacterial infection.
      Title: Dual regulation of Arabidopsis AGO2 by arginine methylation.
    6. AtPRMT5 Regulates Shoot Regeneration through Mediating Histone H4R3 Dimethylation on KRPs and Pre-mRNA Splicing of RKP in Arabidopsis
      Title: AtPRMT5 Regulates Shoot Regeneration through Mediating Histone H4R3 Dimethylation on KRPs and Pre-mRNA Splicing of RKP in Arabidopsis.
    7. a new mechanism of plant root stem cell maintenance under DNA damage conditions that requires SKB1
      Title: The Protein Arginine Methylase 5 (PRMT5/SKB1) Gene Is Required for the Maintenance of Root Stem Cells in Response to DNA Damage.
    8. Plants transduce stress-triggered NO signal to protein methylation machinery through S-nitrosylation of PRMT5 in response to environmental alterations.
      Title: Nitric Oxide Regulates Protein Methylation during Stress Responses in Plants.
    9. SKB1 and SKB1-mediated H4R3sme2 are required for the maintenance of SAM in Arabidopsis seedlings.
      Title: Histone H4R3 methylation catalyzed by SKB1/PRMT5 is required for maintaining shoot apical meristem.
    10. A mutation in CAU1 significantly increased the expression level of the calcium signaling gene CAS, and functional disruption of CAS abolished the enhanced drought tolerance and stomatal [Ca(2+)]o signaling in cau1.
      Title: Arabidopsis histone methylase CAU1/PRMT5/SKB1 acts as an epigenetic suppressor of the calcium signaling gene CAS to mediate stomatal closure in response to extracellular calcium.
    Submit: New GeneRIF Correction See all GeneRIFs (17)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_119262.6
    NM_202918.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein methyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein-arginine N-methyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein-arginine omega-N asymmetric methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of vernalization response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of flower development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    SHK1 binding protein 1
    NP_194841.2
    • SHK1 binding protein 1 (SKB1); FUNCTIONS IN: protein methyltransferase activity; INVOLVED IN: positive regulation of vernalization response, regulation of flower development; LOCATED IN: cytoplasm; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Skb1 methyltransferase (InterPro:IPR007857); Has 957 Blast hits to 940 proteins in 238 species: Archae - 11; Bacteria - 37; Metazoa - 444; Fungi - 148; Plants - 166; Viruses - 0; Other Eukaryotes - 151 (source: NCBI BLink).
    NP_974647.1
    • PROTEIN ARGININE METHYLTRANSFERASE 5 (PRMT5); FUNCTIONS IN: protein methyltransferase activity; INVOLVED IN: positive regulation of vernalization response, regulation of flower development; LOCATED IN: cytoplasm; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Skb1 methyltransferase (InterPro:IPR007857); 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_003075.7 Reference assembly

      Range
      15132011..15136696 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_119262.6 → NP_194841.2  SHK1 binding protein 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_194841.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8GWT4, Q9M090
      UniProtKB/TrEMBL
      A0A178UUS5
      Conserved Domains (2) summary
      pfam05185
      Location:174 → 624
      PRMT5; PRMT5 arginine-N-methyltransferase
      pfam16950
      Location:177 → 472
      SAMBD; SAM-binding_domain

    2. NM_202918.2 → NP_974647.1  SHK1 binding protein 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_974647.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UUS5
      Conserved Domains (2) summary
      pfam05185
      Location:174 → 584
      PRMT5; PRMT5 arginine-N-methyltransferase
      pfam16950
      Location:177 → 472
      SAMBD; SAM-binding_domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8GWT4.2

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