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    WHY3 ssDNA-binding transcriptional regulator [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 814803, updated on 18-Sep-2024

    Summary

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    Official Symbol
    WHY3
    Official Full Name
    ssDNA-binding transcriptional regulator
    Primary source
    TAIR:AT2G02740
    Locus tag
    AT2G02740
    See related
    Araport:AT2G02740
    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
    A. THALIANA WHIRLY 3; ATWHY3; PLASTID TRANSCRIPTIONALLY ACTIVE11; PTAC11; T20F6.12; T20F6_12; WHIRLY 3
    Summary
    Encodes a homolog of the potato p24 protein. It shares the conserved KGKAAL domain, a putative DNA-binding domain, with potato p24 and is localized to the plastid and not the nucleus.
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    Genomic context

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    See WHY3 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    7
    Sequence:
    Chromosome: 2; NC_003071.7 (769334..771235)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene PAS/LOV protein B Neighboring gene Pectate lyase family protein Neighboring gene ncRNA Neighboring gene GRIP/coiled-coil protein, putative (DUF1664) Neighboring gene Pentatricopeptide repeat (PPR) superfamily protein Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ubiquiting-conjugating enzyme 2 Neighboring gene L-aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase

    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. RNase H1C collaborates with ssDNA binding proteins WHY1/3 and recombinase RecA1 to fulfill the DNA damage repair in Arabidopsis chloroplasts. Wang W, et al. Nucleic Acids Res, 2021 Jul 9. PMID 34133716, Free PMC Article
    2. A conserved lysine residue of plant Whirly proteins is necessary for higher order protein assembly and protection against DNA damage. Cappadocia L, et al. Nucleic Acids Res, 2012 Jan. PMID 21911368, Free PMC Article
    3. Recruitment of AtWHY1 and AtWHY3 by a distal element upstream of the kinesin gene AtKP1 to mediate transcriptional repression. Xiong JY, et al. Plant Mol Biol, 2009 Nov. PMID 19669906
    4. Whirly proteins maintain plastid genome stability in Arabidopsis. Maréchal A, et al. Proc Natl Acad Sci U S A, 2009 Aug 25. PMID 19666500, Free PMC Article
    5. DNA-binding proteins of the Whirly family in Arabidopsis thaliana are targeted to the organelles. Krause K, et al. FEBS Lett, 2005 Jul 4. PMID 15967440

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RNase H1C collaborates with ssDNA binding proteins WHY1/3 and recombinase RecA1 to fulfill the DNA damage repair in Arabidopsis chloroplasts.
      Title: RNase H1C collaborates with ssDNA binding proteins WHY1/3 and recombinase RecA1 to fulfill the DNA damage repair in Arabidopsis chloroplasts.
    2. AtWHY1 and AtWHY3, as two components of KBF1, can be recruited at the KPRE site to mediate the transcriptional repression of AtKP1.
      Title: Recruitment of AtWHY1 and AtWHY3 by a distal element upstream of the kinesin gene AtKP1 to mediate transcriptional repression.
    3. Data show that a double KO of the genes AtWhy1 and AtWhy3 leads to the appearance of plants with variegated green/white/yellow leaves, symptomatic of nonfunctional chloroplasts.
      Title: Whirly proteins maintain plastid genome stability in Arabidopsis.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_126329.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables mRNA binding HDA PubMed 
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables single-stranded DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA repair IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within defense response TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast HDA PubMed 
    located_in chloroplast IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    located_in chloroplast nucleoid HDA PubMed 
    located_in chloroplast stroma HDA PubMed 
    located_in mitochondrion HDA PubMed 
    NOT located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    ssDNA-binding transcriptional regulator
    NP_178377.2
    • WHIRLY 3 (WHY3); FUNCTIONS IN: DNA binding; INVOLVED IN: defense response; LOCATED IN: plastid chromosome, chloroplast, nucleoid; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: ssDNA-binding transcriptional regulator (InterPro:IPR009044), Plant transcription factor (InterPro:IPR013742); BEST Arabidopsis thaliana protein match is: ssDNA-binding transcriptional regulator (TAIR:AT1G14410.1); 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
      769334..771235
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_126329.4 → NP_178377.2  ssDNA-binding transcriptional regulator [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_178377.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A8MR64, O64508, Q0WLJ4, Q66GR6
      UniProtKB/TrEMBL
      A0A178VLN3, A0A5S9WWM9
      Conserved Domains (1) summary
      pfam08536
      Location:91 → 227
      Whirly; Whirly transcription factor
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q66GR6.1

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