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    exo-3 DNA-(apurinic or apyrimidinic site) endonuclease;exodeoxyribonuclease III [ Caenorhabditis elegans ]

    Gene ID: 173069, updated on 2-Nov-2024

    Summary

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    Official Symbol
    exo-3
    Official Full Name
    DNA-(apurinic or apyrimidinic site) endonuclease;exodeoxyribonuclease III
    Primary source
    WormBase:WBGene00001372
    Locus tag
    CELE_R09B3.1
    See related
    AllianceGenome:WB:WBGene00001372
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Caenorhabditis elegans (strain: Bristol N2)
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
    Summary
    Enables DNA-(apurinic or apyrimidinic site) endonuclease activity and phosphoric diester hydrolase activity. Involved in base-excision repair; embryo development; and nematode larval development. Predicted to be active in nucleus. Is expressed in hermaphrodite gonad and male gonad. Human ortholog(s) of this gene implicated in artery disease (multiple); breast cancer; female reproductive organ cancer (multiple); spina bifida; and urinary bladder cancer. Orthologous to human APEX1 (apurinic/apyrimidinic endodeoxyribonuclease 1). [provided by Alliance of Genome Resources, Nov 2024]
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    Genomic context

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    See exo-3 in Genome Data Viewer
    Location:
    chromosome: I
    Exon count:
    4
    Sequence:
    Chromosome: I; NC_003279.8 (11907571..11909251, complement)

    Chromosome I - NC_003279.8Genomic Context describing neighboring genes Neighboring gene pseudo Neighboring gene pseudo Neighboring gene RRM domain-containing protein Neighboring gene RRM domain-containing protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003279.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Characterization of Caenorhabditis elegans exonuclease-3 and evidence that a Mg2+-dependent variant exhibits a distinct mode of action on damaged DNA. Shatilla A, et al. Biochemistry, 2005 Sep 27. PMID 16171399
    2. Functional characterization of the Caenorhabditis elegans DNA repair enzyme APN-1. Yang X, et al. DNA Repair (Amst), 2012 Oct 1. PMID 22819077
    3. Identification of two apurinic/apyrimidinic endonucleases from Caenorhabditis elegans by cross-species complementation. Shatilla A, et al. DNA Repair (Amst), 2005 Jun 8. PMID 15907773
    4. The Base Excision Repair Pathway in the Nematode Caenorhabditis elegans. Elsakrmy N, et al. Front Cell Dev Biol, 2020. PMID 33344454, Free PMC Article
    5. UNG-1 and APN-1 are the major enzymes to efficiently repair 5-hydroxymethyluracil DNA lesions in C. elegans. Papaluca A, et al. Sci Rep, 2018 May 1. PMID 29717169, Free PMC Article

    See all (28) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. EXO-3 deficiency causes developmental delay and abnormal vulval organogenesis, Pvl, through DNA glycosylase-initiated checkpoint activation in Caenorhabditis elegans
      Title: AP endonuclease EXO-3 deficiency causes developmental delay and abnormal vulval organogenesis, Pvl, through DNA glycosylase-initiated checkpoint activation in Caenorhabditis elegans.
    2. This study demonstrated differential roles of EXO-3 in somatic cells and germ cells.
      Title: Caenorhabditis elegans EXO-3 contributes to longevity and reproduction: differential roles in somatic cells and germ cells.
    3. Base excision repair endonucleases APN-1 and EXO-3 function in the same pathway as DNA mismatch repair, to elicit DNA-directed toxicity in response to 5-fluorouracil.
      Title: Base excision repair AP endonucleases and mismatch repair act together to induce checkpoint-mediated autophagy.
    4. Glu68 may play a role in coordinating Mg2+ binding for the enzyme catalytic mechanism.
      Title: Characterization of Caenorhabditis elegans exonuclease-3 and evidence that a Mg2+-dependent variant exhibits a distinct mode of action on damaged DNA.
    5. Exo-3 expresses apurinic/apyrimidinic endonuclease in a Saccharomyces cerevisiae mutant.
      Title: Identification of two apurinic/apyrimidinic endonucleases from Caenorhabditis elegans by cross-species complementation.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by WormBase

    Function Evidence Code Pubs
    enables DNA-(apurinic or apyrimidinic site) endonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-(apurinic or apyrimidinic site) endonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables double-stranded DNA 3'-5' DNA exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphoric diester hydrolase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphoric diester hydrolase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA repair IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in base-excision repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in base-excision repair IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in embryo development ending in birth or egg hatching IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nematode larval development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    DNA-(apurinic or apyrimidinic site) endonuclease;exodeoxyribonuclease III
    NP_001021584.1
    • Confirmed by transcript evidence
    NP_001021585.1
    • Confirmed by transcript evidence

    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_003279.8 Reference assembly

      Range
      11907571..11909251 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001026413.7 → NP_001021584.1  exodeoxyribonuclease III [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001021584.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5EBR7
      Conserved Domains (1) summary
      cd09087
      Location:35 → 286
      Ape1-like_AP-endo; Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases

    2. NM_001026414.5 → NP_001021585.1  DNA-(apurinic or apyrimidinic site) endonuclease [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001021585.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q564V5
      Conserved Domains (1) summary
      cl00490
      Location:35 → 179
      EEP; Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily
    Nucleotide Protein
    Heading Accession and Version

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