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    alkB oxidative demethylase of N1-methyladenine or N3-methylcytosine DNA lesions [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 946708, updated on 4-Feb-2012
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    Summary

    Gene symbol
    alkB
    Gene description
    oxidative demethylase of N1-methyladenine or N3-methylcytosine DNA lesions
    Primary source
    EcoGene:EG10037
    Locus tag
    b2212
    See related
    ECOCYC:EG10037
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655, old-name: Escherichia coli K12)
    Lineage
    Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacteriales; Enterobacteriaceae; Escherichia
    Also known as
    aidD; ECK2204; JW2200
    Summary
    AlkB mutants are extremely sensitive to MMS. [More information is available at EcoGene: EG10037]. AlkB is a Fe(II)-containing, 2-oxoglutarate-dependent dioxygenase involved in the adaptive DNA-repair response of Escherichia coli to alkylating agents. [More information is available at EcoCyc: EG10037].
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    Genomic context

    Sequence :
    NC_000913.2 (2306713..2307363, complement)

    NC_000913.2Genomic Context describing neighboring genes Neighboring gene malate dehydrogenase, FAD/NAD(P)-binding domain Neighboring gene Microcin J25 efflux pump, TolC-dependent; fused ABC transporter permease and ATP-binding components Neighboring gene fused DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase Neighboring gene predicted thiamine biosynthesis lipoprotein

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    Genomic regions, transcripts, and products

    Go to nucleotideGraphics FASTA GenBank

    Go to reference sequence details
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    Bibliography

    Related articles in PubMed

    1. The role of AlkB protein in repair of 1,N⁶-ethenoadenine in Escherichia coli cells. Maciejewska AM, et al. Mutagenesis, 2011 May. PMID 21193516.
    2. Lethal and mutagenic properties of MMS-generated DNA lesions in Escherichia coli cells deficient in BER and AlkB-directed DNA repair. Sikora A, et al. Mutagenesis, 2010 Mar. PMID 19892776.
    3. A non-heme iron-mediated chemical demethylation in DNA and RNA. Yi C, et al. Acc Chem Res, 2009 Apr 21. PMID 19852088.
    4. Bioinformatics and functional analysis define four distinct groups of AlkB DNA-dioxygenases in bacteria. van den Born E, et al. Nucleic Acids Res, 2009 Nov. PMID 19786499.
    5. Enzymological and structural studies of the mechanism of promiscuous substrate recognition by the oxidative DNA repair enzyme AlkB. Yu B, et al. Proc Natl Acad Sci U S A, 2009 Aug 25. PMID 19706517.

    See all (79) citations in PubMed

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    1. The AlkB dioxygenase plays a major role in decreasing the level of AT-->TA mutations, thus in the repair of Etheno-DNA adducts in E.coli cells.
      Title: The role of AlkB protein in repair of 1,N⁶-ethenoadenine in Escherichia coli cells.
    2. Cocrystal structures provide insight into the structural basis of this "k(cat)/K(m) compensation," which makes a significant contribution to promiscuous substrate recognition by AlkB.
      Title: Enzymological and structural studies of the mechanism of promiscuous substrate recognition by the oxidative DNA repair enzyme AlkB.
    3. N-terminus verified by Edman degradation on complete protein
      Title: Structure and expression of the alkB gene of Escherichia coli related to the repair of alkylated DNA.
    4. work provides direct evidence that AlkB suppresses both genotoxicity and mutagenesis by physiologically realistic low doses of 1-alkylpurine and 3-alkylpyrimidine DNA damage in vivo
      Title: Mutagenesis, genotoxicity, and repair of 1-methyladenine, 3-alkylcytosines, 1-methylguanine, and 3-methylthymine in alkB Escherichia coli.
    5. AlkB dioxygenase, PolV (UmuD'C), and AlkA have roles in preventing MMS-induced mutagenesis in Escherichia coli
      Title: AlkB dioxygenase in preventing MMS-induced mutagenesis in Escherichia coli: effect of Pol V and AlkA proteins.
    6. AlkB repairs epsilonA and epsilonC genomic lesions.
      Title: AlkB reverses etheno DNA lesions caused by lipid oxidation in vitro and in vivo.
    7. crystal structures of substrate and product complexes of E. coli AlkB at resolutions from 1.8 to 2.3 A
      Title: Crystal structures of catalytic complexes of the oxidative DNA/RNA repair enzyme AlkB.
    8. AlkB is shown here to be a geno-protective agent that reduces the toxicity of DNA damage by converting the primary adduct to a less toxic secondary product
      Title: Alleviation of 1,N6-ethanoadenine genotoxicity by the Escherichia coli adaptive response protein AlkB.
    Submit: New GeneRIF Correction
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    General gene information

    Gene Ontology Provided by Univ. Wisconsin

    Process Evidence Code Pubs
    DNA repair  
    Component Evidence Code Pubs
    cytoplasm  
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    General protein information

    Names
    oxidative demethylase of N1-methyladenine or N3-methylcytosine DNA lesions
    NP_416716.1
    • DNA repair system specific for alkylated DNA
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    NCBI Reference Sequences (RefSeq)

    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_000913.2

      Range
      2306713..2307363, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_416716.1 oxidative demethylase of N1-methyladenine or N3-methylcytosine DNA lesions [Escherichia coli str. K-12 substr. MG1655]

      UniProtKB/Swiss-Prot
      P05050
      Conserved Domains (1) summary
      cl15773
      Location:1 – 212
      Blast Score: 1123
      2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily
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    Related Sequences

    Nucleotide Protein
    Heading Accession and Version
    genomic U00096.2 AAC75272.1
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    Additional Links

    Gene LinkOut

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      Supplemental Content