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    SGS3 XS domain-containing protein / XS zinc finger domain-containing protein-like protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 832422, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SGS3
    Official Full Name
    XS domain-containing protein / XS zinc finger domain-containing protein-like protein
    Primary source
    TAIR:AT5G23570
    Locus tag
    AT5G23570
    See related
    Araport:AT5G23570
    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
    ATSGS3; MQM1.17; MQM1_17; SUPPRESSOR OF GENE SILENCING 3
    Summary
    Required for posttranscriptional gene silencing and natural virus resistance.SGS3 is a member of an 'unknown' protein family. Members of this family have predicted coiled coiled domains suggesting oligomerization and a potential zinc finger domain. Involved in the production of trans-acting siRNAs, through direct or indirect stabilization of cleavage fragments of the primary ta-siRNA transcript. Acts before RDR6 in this pathway.
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    Genomic context

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    See SGS3 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    4
    Sequence:
    Chromosome: 5; NC_003076.8 (7942908..7946147)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene KOW domain-containing protein Neighboring gene Mov34/MPN/PAD-1 family protein Neighboring gene Got1/Sft2-like vescicle transport protein family Neighboring gene Transmembrane CLPTM1 family protein Neighboring gene calmodulin-like domain protein kinase 9 Neighboring gene DNAJ heat shock N-terminal domain-containing protein Neighboring gene RNA 2'-phosphotransferase, Tpt1 / KptA family

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Turnip crinkle virus-encoded suppressor of RNA silencing interacts with Arabidopsis SGS3 to enhance virus infection. Liu L, et al. Mol Plant Pathol, 2023 Feb. PMID 36433724, Free PMC Article
    2. Warm temperatures induce transgenerational epigenetic release of RNA silencing by inhibiting siRNA biogenesis in Arabidopsis. Zhong SH, et al. Proc Natl Acad Sci U S A, 2013 May 28. PMID 23686579, Free PMC Article
    3. A neomorphic sgs3 allele stabilizing miRNA cleavage products reveals that SGS3 acts as a homodimer. Elmayan T, et al. FEBS J, 2009 Feb. PMID 19143842
    4. SGS3 and SGS2/SDE1/RDR6 are required for juvenile development and the production of trans-acting siRNAs in Arabidopsis. Peragine A, et al. Genes Dev, 2004 Oct 1. PMID 15466488, Free PMC Article
    5. Arabidopsis SGS2 and SGS3 genes are required for posttranscriptional gene silencing and natural virus resistance. Mourrain P, et al. Cell, 2000 May 26. PMID 10850495

    See all (20) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The phase separation of SGS3 regulates antiviral immunity and fertility in Arabidopsis.
      Title: The phase separation of SGS3 regulates antiviral immunity and fertility in Arabidopsis.
    2. Turnip crinkle virus-encoded suppressor of RNA silencing interacts with Arabidopsis SGS3 to enhance virus infection.
      Title: Turnip crinkle virus-encoded suppressor of RNA silencing interacts with Arabidopsis SGS3 to enhance virus infection.
    3. Ribosome stalling caused by the Argonaute-microRNA-SGS3 complex regulates the production of secondary siRNAs in plants.
      Title: Ribosome stalling caused by the Argonaute-microRNA-SGS3 complex regulates the production of secondary siRNAs in plants.
    4. A small peptide inhibits siRNA amplification in plants by mediating autophagic degradation of SGS3/RDR6 bodies.
      Title: A small peptide inhibits siRNA amplification in plants by mediating autophagic degradation of SGS3/RDR6 bodies.
    5. Synergy between the anthocyanin and RDR6/SGS3/DCL4 siRNA pathways expose hidden features of Arabidopsis carbon metabolism.
      Title: Synergy between the anthocyanin and RDR6/SGS3/DCL4 siRNA pathways expose hidden features of Arabidopsis carbon metabolism.
    6. The results show that the expression of VPg alone, independent of viral infection, is sufficient to induce the degradation of SGS3 and its intimate partner, RDR6.
      Title: The Potyvirus Silencing Suppressor Protein VPg Mediates Degradation of SGS3 via Ubiquitination and Autophagy Pathways.
    7. Viral genome-linked protein (VPg) acts as a suppressor of RNA silencing and suggest that an interaction with SGS3 may be important, especially in suppression of sense-mediated RNA silencing.
      Title: Silencing suppressor protein VPg of a potyvirus interacts with the plant silencing-related protein SGS3.
    8. Temperature increase reduces the protein abundance of SUPPRESSOR OF GENE SILENCING 3 and induce transgenerational epigenetic release of RNA silencing by inhibiting siRNA biogenesis in Arabidopsis.
      Title: Warm temperatures induce transgenerational epigenetic release of RNA silencing by inhibiting siRNA biogenesis in Arabidopsis.
    9. SGS3 associates with AGO1-RISC via the double-stranded RNA formed by the 3'-terminal nucleotides of 22-nt miR173 and corresponding target RNA, which probably protrudes from the AGO1-RISC molecular surface
      Title: 3' fragment of miR173-programmed RISC-cleaved RNA is protected from degradation in a complex with RISC and SGS3.
    10. Components of the RNA-silencing machinery, RNA-DEPENDENT RNA POLYMERASE1 and SUPPRESSOR OF GENE SILENCING3 were isolated, implicating RNA silencing in the control of cuticular wax deposition during inflorescence stem development in Arabidopsis .
      Title: RDR1 and SGS3, components of RNA-mediated gene silencing, are required for the regulation of cuticular wax biosynthesis in developing inflorescence stems of Arabidopsis.
    Submit: New GeneRIF Correction See all GeneRIFs (13)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001343818.1
    NM_122263.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables ubiquitin protein ligase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNAi-mediated antiviral immune response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in defense response to bacterium IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in defense response to virus IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within defense response to virus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in heat acclimation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in response to heat IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to heat IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within siRNA processing IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within ta-siRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within vegetative phase change IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within wax biosynthetic process IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  
    located_in cytoplasmic stress granule IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    XS domain-containing protein / XS zinc finger domain-containing protein-like protein
    NP_197747.1
    • SUPPRESSOR OF GENE SILENCING 3 (SGS3); CONTAINS InterPro DOMAIN/s: Domain of unknown function XS (InterPro:IPR005380), Domain of unknown function, putative Zinc finger, XS/XH (InterPro:IPR005381); BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT3G22430.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (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_003076.8 Reference assembly

      Range
      7942908..7946147
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001343816.1 → NP_001331492.1  XS domain-containing protein / XS zinc finger domain-containing protein-like protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UR75, A0A1P8BE44, A0A5S9Y6R3

    2. NM_001343817.1 → NP_001331491.1  XS domain-containing protein / XS zinc finger domain-containing protein-like protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9LDX1
      UniProtKB/TrEMBL
      A0A178UR75

    3. NM_122263.3 → NP_197747.1  XS domain-containing protein / XS zinc finger domain-containing protein-like protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_197747.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9LDX1
      UniProtKB/TrEMBL
      A0A178UR75
      Conserved Domains (3) summary
      pfam03470
      Location:228 → 265
      zf-XS; XS zinc finger domain
      pfam03468
      Location:298 → 411
      XS; XS domain
      cl22931
      Location:328 → 546
      TAF12; TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

    4. NM_001343818.1 → NP_001331490.1  XS domain-containing protein / XS zinc finger domain-containing protein-like protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UR75, A0A1P8BE44, A0A5S9Y6R3
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LDX1.1

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