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    5'-3' exonuclease family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 837373, updated on 18-Sep-2024

    Summary

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    Official Full Name
    5'-3' exonuclease family protein
    Primary source
    TAIR:AT1G01880
    Locus tag
    AT1G01880
    See related
    Araport:AT1G01880
    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
    AtGEN1; F22M8.2; F22M8_2; GEN1; ortholog of HsGEN1
    Summary
    Encodes one of two GEN1 homologs in Arabidopsis. It is a member of the class IV Rad2/XPG family of nucleases that processes Holliday junctions in a manner analogous to the HJ resolvases of phages, archaea, and bacteria.
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    Genomic context

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    Location:
    chromosome: 1
    Exon count:
    9
    Sequence:
    Chromosome: 1; NC_003070.9 (306467..309541, complement)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene Ribosomal RNA adenine dimethylase family protein Neighboring gene tRNA-Val Neighboring gene tRNA-Lys Neighboring gene subtilase family protein Neighboring gene ncRNA Neighboring gene P-loop containing nucleoside triphosphate hydrolases superfamily protein Neighboring gene ncRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. AtGEN1 and AtSEND1, two paralogs in Arabidopsis, possess holliday junction resolvase activity. Bauknecht M, et al. Plant Physiol, 2014 Sep. PMID 25037209, Free PMC Article
    2. The Structure-Specific Endonucleases MUS81 and SEND1 Are Essential for Telomere Stability in Arabidopsis. Olivier M, et al. Plant Cell, 2016 Jan. PMID 26704385, Free PMC Article
    3. CDKB1;1 forms a functional complex with CYCA2;3 to suppress endocycle onset. Boudolf V, et al. Plant Physiol, 2009 Jul. PMID 19458112, Free PMC Article
    4. Targeted interactomics reveals a complex core cell cycle machinery in Arabidopsis thaliana. Van Leene J, et al. Mol Syst Biol, 2010 Aug 10. PMID 20706207, Free PMC Article
    5. Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana. Theologis A, et al. Nature, 2000 Dec 14. PMID 11130712

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. resolvase activity involves resolving holliday junctions by symmetrically oriented incisions in two opposing strands
      Title: AtGEN1 and AtSEND1, two paralogs in Arabidopsis, possess holliday junction resolvase activity.
    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_001197958.1
    NM_001331313.1
    NM_100069.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables 5'-flap endonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables crossover junction DNA endonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA metabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in UV protection IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    5'-3' exonuclease family protein
    NP_001184887.1
    • 5'-3' exonuclease family protein; FUNCTIONS IN: DNA binding, catalytic activity, nuclease activity; INVOLVED IN: DNA repair; LOCATED IN: cellular_component unknown; CONTAINS InterPro DOMAIN/s: XPG N-terminal (InterPro:IPR006085), DNA repair protein (XPGC)/yeast Rad (InterPro:IPR006084), 5'-3' exonuclease, C-terminal subdomain (InterPro:IPR020045), Helix-hairpin-helix motif, class 2 (InterPro:IPR008918), XPG/RAD2 endonuclease (InterPro:IPR006086); BEST Arabidopsis thaliana protein match is: single-stranded DNA endonuclease family protein (TAIR:AT3G48900.2).
    NP_171691.2
    • 5'-3' exonuclease family protein; FUNCTIONS IN: DNA binding, catalytic activity, nuclease activity; INVOLVED IN: DNA repair; LOCATED IN: cellular_component unknown; CONTAINS InterPro DOMAIN/s: XPG N-terminal (InterPro:IPR006085), DNA repair protein (XPGC)/yeast Rad (InterPro:IPR006084), 5'-3' exonuclease, C-terminal subdomain (InterPro:IPR020045), Helix-hairpin-helix motif, class 2 (InterPro:IPR008918), XPG/RAD2 endonuclease (InterPro:IPR006086); BEST Arabidopsis thaliana protein match is: single-stranded DNA endonuclease family protein (TAIR:AT3G48900.2); Has 2133 Blast hits to 1941 proteins in 373 species: Archae - 274; Bacteria - 9; Metazoa - 492; Fungi - 719; Plants - 217; Viruses - 17; Other Eukaryotes - 405 (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_003070.9 Reference assembly

      Range
      306467..309541 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001331312.1 → NP_001320987.1  5'-3' exonuclease family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4HU72, Q9LPD2
      UniProtKB/TrEMBL
      A0A178WDN3, A0A178WE55
      Conserved Domains (2) summary
      cd09905
      Location:200 → 359
      H3TH_GEN1; H3TH domain of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease
      cd09869
      Location:2 → 202
      PIN_GEN1; FEN-like PIN domains of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs

    2. NM_100069.3 → NP_171691.2  5'-3' exonuclease family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_171691.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4HU72, Q9LPD2
      UniProtKB/TrEMBL
      A0A178WDN3, A0A178WE55
      Conserved Domains (2) summary
      cd09905
      Location:200 → 359
      H3TH_GEN1; H3TH domain of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease
      cd09869
      Location:2 → 202
      PIN_GEN1; FEN-like PIN domains of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs

    3. NM_001197958.1 → NP_001184887.1  5'-3' exonuclease family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001184887.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178WDN3, F4HU71
      Conserved Domains (2) summary
      cd09905
      Location:199 → 358
      H3TH_GEN1; H3TH domain of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease
      cd09869
      Location:1 → 198
      PIN_GEN1; PIN domain of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs

    4. NM_001331313.1 → NP_001320986.1  5'-3' exonuclease family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178WDN3, A0A1P8APG4
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LPD2.3

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