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    ATLIG4 DNA ligase IV [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 835822, updated on 18-Sep-2024

    Summary

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    Official Symbol
    ATLIG4
    Official Full Name
    DNA ligase IV
    Primary source
    TAIR:AT5G57160
    Locus tag
    AT5G57160
    See related
    Araport:AT5G57160
    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
    DNA LIGASE IV; LIG4
    Summary
    Encodes the Arabidopsis orthologue of the yeast and mammalian DNA ligase IV. Involved in the repair of DNA damage but, unlike in yeast, not required for T-DNA integration. Interacts with the Arabidopsis homologue of XRCC4.
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    Genomic context

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    See ATLIG4 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    26
    Sequence:
    Chromosome: 5; NC_003076.8 (23154965..23161826, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene Clp amino terminal domain-containing protein Neighboring gene purple acid phosphatase 28 Neighboring gene basic helix-loop-helix (bHLH) DNA-binding superfamily protein Neighboring gene Tautomerase/MIF superfamily protein Neighboring gene chloroplast import apparatus 2

    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. Telomere dynamics and fusion of critically shortened telomeres in plants lacking DNA ligase IV. Heacock ML, et al. Nucleic Acids Res, 2007. PMID 17897968, Free PMC Article
    2. The Arabidopsis AtLIG4 gene is required for the repair of DNA damage, but not for the integration of Agrobacterium T-DNA. van Attikum H, et al. Nucleic Acids Res, 2003 Jul 15. PMID 12853643, Free PMC Article
    3. Involvement of AtPolλ in the repair of high salt- and DNA cross-linking agent-induced double strand breaks in Arabidopsis. Roy S, et al. Plant Physiol, 2013 Jun. PMID 23660835, Free PMC Article
    4. Arabidopsis DNA ligase IV is induced by gamma-irradiation and interacts with an Arabidopsis homologue of the double strand break repair protein XRCC4. West CE, et al. Plant J, 2000 Oct. PMID 11029705
    5. Rapid repair of DNA double strand breaks in Arabidopsis thaliana is dependent on proteins involved in chromosome structure maintenance. Kozak J, et al. DNA Repair (Amst), 2009 Mar 1. PMID 19070688

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. DNA ligase IV (LIG4) is not essential for telomere joining.
      Title: Telomere dynamics and fusion of critically shortened telomeres in plants lacking DNA ligase IV.
    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_001345245.1
    NM_125098.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA ligase (ATP) activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA ligase (ATP) activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within DNA damage response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    NOT involved_in DNA integration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in DNA ligation involved in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within double-strand break repair IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within double-strand break repair via nonhomologous end joining IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within response to X-ray IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    NOT involved_in telomere maintenance IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plasmodesma HDA PubMed 

    General protein information

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    Preferred Names
    DNA ligase IV
    NP_568851.2
    • ATLIG4; FUNCTIONS IN: protein binding, DNA ligase (ATP) activity; INVOLVED IN: double-strand break repair, response to X-ray, response to DNA damage stimulus; LOCATED IN: intracellular; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 12 growth stages; CONTAINS InterPro DOMAIN/s: Nucleic acid-binding, OB-fold (InterPro:IPR012340), DNA ligase, N-terminal (InterPro:IPR012308), ATP dependent DNA ligase, central (InterPro:IPR012310), ATP dependent DNA ligase, C-terminal (InterPro:IPR012309), ATP-dependent DNA ligase, conserved site (InterPro:IPR016059), ATP-dependent DNA ligase (InterPro:IPR000977), BRCT (InterPro:IPR001357); BEST Arabidopsis thaliana protein match is: DNA ligase 1 (TAIR:AT1G08130.1); Has 7656 Blast hits to 6618 proteins in 1076 species: Archae - 317; Bacteria - 1869; Metazoa - 2250; Fungi - 907; Plants - 304; Viruses - 214; Other Eukaryotes - 1795 (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
      23154965..23161826 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_125098.4 → NP_568851.2  DNA ligase IV [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_568851.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9LL84, Q9LU70
      UniProtKB/TrEMBL
      A0A178UKD7, A0A5S9YH46
      Conserved Domains (4) summary
      PTZ00121
      Location:909 → 1180
      PTZ00121; MAEBL; Provisional
      TIGR00574
      Location:61 → 600
      dnl1; DNA ligase I, ATP-dependent (dnl1)
      cd17717
      Location:802 → 898
      BRCT_DNA_ligase_IV_rpt2; second BRCT domain of DNA ligase 4 (LIG4) and similar proteins
      cd17722
      Location:655 → 741
      BRCT_DNA_ligase_IV_rpt1; first BRCT domain of DNA ligase 4 (LIG4) and similar proteins

    2. NM_001345245.1 → NP_001332576.1  DNA ligase IV [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BHE2
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LL84.1

    Gene LinkOut

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