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    ygiD 4,5-DOPA dioxygenase extradiol [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 946447, updated on 3-Dec-2024

    Summary

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    Official Symbol
    ygiD
    Official Full Name
    4,5-DOPA dioxygenase extradiol
    Primary source
    ECOCYC:EG11166
    Locus tag
    b3039
    See related
    ASAP:ABE-0009973
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
    Lineage
    Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
    Also known as
    ECK3030
    Summary
    In the Escherichia coli asymptomatic bacteriuria (ABU) strains 83972 and VR50, YgiD is involved in biofilm formation in urine . [More information is available at EcoCyc: EG11166].
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    Genomic context

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    Sequence:
    NC_000913.3 (3181619..3182434, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene DUF1190 domain-containing protein YgiB Neighboring gene putative acid--amine ligase YgiC Neighboring gene divalent metal ion transporter ZupT Neighboring gene protein YqiD

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_000913.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Escherichia coli protein YgiD produces the structural unit of plant pigments betalains: characterization of a prokaryotic enzyme with DOPA-extradiol-dioxygenase activity. Gandía-Herrero F, et al. Appl Microbiol Biotechnol, 2014 Feb. PMID 23666480
    2. Nucleotide sequence of a region duplicated in Escherichia coli toc mutants. Yang TP, et al. Biochim Biophys Acta, 1992 Mar 24. PMID 1314093
    3. Global gene expression profiling of asymptomatic bacteriuria Escherichia coli during biofilm growth in human urine. Hancock V, et al. Infect Immun, 2007 Feb. PMID 17145952, Free PMC Article
    4. A functional update of the Escherichia coli K-12 genome. Serres MH, et al. Genome Biol, 2001. PMID 11574054, Free PMC Article
    5. Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110. Hayashi K, et al. Mol Syst Biol, 2006. PMID 16738553, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Here, the first case of betalamic acid formation by an enzyme other than eukaryotes is reported with homolog YgiD enzyme from Escherichia coli.
      Title: Escherichia coli protein YgiD produces the structural unit of plant pigments betalains: characterization of a prokaryotic enzyme with DOPA-extradiol-dioxygenase activity.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ferrous iron binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity, acting on single donors with incorporation of molecular oxygen IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables stizolobate synthase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables stizolobate synthase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    4,5-DOPA dioxygenase extradiol
    NP_417511.3

    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_000913.3 Reference assembly

      Range
      3181619..3182434 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_417511.3 4,5-DOPA dioxygenase extradiol [Escherichia coli str. K-12 substr. MG1655]

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A7I8YTT1, A0A8S7JSP7, A0A8S7RZL0
      Conserved Domains (1) summary
      PRK10628
      Location:26 → 271
      PRK10628; LigB family dioxygenase; Provisional
    Nucleotide Protein
    Heading Accession and Version

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