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    LIG1 DNA ligase 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 837333, updated on 18-Sep-2024

    Summary

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    Official Symbol
    LIG1
    Official Full Name
    DNA ligase 1
    Primary source
    TAIR:AT1G08130
    Locus tag
    AT1G08130
    See related
    Araport:AT1G08130
    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
    ATLIG1; DNA ligase 1; T6D22.23
    Summary
    Encodes the Arabidopsis DNA ligase 1 that provides the major DNA ligase activity in cells and plays a key role in both DNA replication and excision repair pathways. Indispensable for cell viability. AtLIG1 expresses one major and two minor mRNA transcripts differing only in the length of the 5' untranslated leader sequences preceding a common ORF. Translation from the first in-frame start codon produces an AtLIG1 isoform that is targeted exclusively to the mitochondria. Translation initiation from the second in-frame start codon produces an AtLIG1 isoform targeted only to the nucleus.
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    Genomic context

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    See LIG1 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    17
    Sequence:
    Chromosome: 1; NC_003070.9 (2542663..2547946, complement)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene TP53-regulating kinase-like protein Neighboring gene ncRNA Neighboring gene S-adenosyl-L-methionine-dependent methyltransferases superfamily protein Neighboring gene cation/H+ exchanger 6B Neighboring gene cation/H+ exchanger 6A

    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. A DNA ligase required for active DNA demethylation and genomic imprinting in Arabidopsis. Li Y, et al. Cell Res, 2015 Jun. PMID 25906993, Free PMC Article
    2. DNA ligase 1 deficient plants display severe growth defects and delayed repair of both DNA single and double strand breaks. Waterworth WM, et al. BMC Plant Biol, 2009 Jun 26. PMID 19558640, Free PMC Article
    3. An evolutionarily conserved translation initiation mechanism regulates nuclear or mitochondrial targeting of DNA ligase 1 in Arabidopsis thaliana. Sunderland PA, et al. Plant J, 2006 Aug. PMID 16790030
    4. Arabidopsis ARP endonuclease functions in a branched base excision DNA repair pathway completed by LIG1. Córdoba-Cañero D, et al. Plant J, 2011 Nov. PMID 21781197
    5. DNA LIGASE I exerts a maternal effect on seed development in Arabidopsis thaliana. Andreuzza S, et al. Development, 2010 Jan. PMID 20023162

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The AtLIG1 is an important component of the active DNA demethylation machinery.
      Title: A DNA ligase required for active DNA demethylation and genomic imprinting in Arabidopsis.
    2. LIG1 is required for both single-nucleotide or long-patch base excision repair.
      Title: Arabidopsis ARP endonuclease functions in a branched base excision DNA repair pathway completed by LIG1.
    3. In the study, we show that loss-of-function of the major DNA LIGASE I (AtLIG1) in Arabidopsis thaliana causes maternal effects in the endosperm, which is the seed tissue that nurtures embryo development.
      Title: DNA LIGASE I exerts a maternal effect on seed development in Arabidopsis thaliana.
    4. DNA ligase 1 functions in both DNA replication and in repair of both ss and dsDNA strand breaks.
      Title: DNA ligase 1 deficient plants display severe growth defects and delayed repair of both DNA single and double strand breaks.
    5. Nuclear or mitochondrial targeting of LIG1 is accomplished through an evolutionarily conserved translation initiation mechanism. [AtLIG1]
      Title: An evolutionarily conserved translation initiation mechanism regulates nuclear or mitochondrial targeting of DNA ligase 1 in Arabidopsis thaliana.
    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_100689.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA ligase (ATP) activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA replication IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in double-strand break repair IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in single strand break repair IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    DNA ligase 1
    NP_172293.2
    • DNA ligase 1 (LIG1); FUNCTIONS IN: DNA binding, DNA ligase (ATP) activity, ATP binding; INVOLVED IN: DNA repair, DNA replication, DNA recombination; LOCATED IN: mitochondrion, nucleus; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 14 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 (InterPro:IPR000977), ATP-dependent DNA ligase, conserved site (InterPro:IPR016059); BEST Arabidopsis thaliana protein match is: ATP-dependent DNA ligase (TAIR:AT1G49250.1); Has 3556 Blast hits to 3521 proteins in 879 species: Archae - 298; Bacteria - 1538; Metazoa - 375; Fungi - 434; Plants - 112; Viruses - 159; Other Eukaryotes - 640 (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
      2542663..2547946 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_100689.5 → NP_172293.2  DNA ligase 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_172293.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q42572, Q541Y6, Q56W81, Q9LMZ4, Q9SGE5
      UniProtKB/TrEMBL
      A0A178W5M1
      Conserved Domains (1) summary
      PLN03113
      Location:49 → 790
      PLN03113; DNA ligase 1; Provisional
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q42572.2

    Gene LinkOut

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