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    ybdO putative LysR family DNA-binding transcriptional regulator YbdO [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 945216, updated on 3-Dec-2024

    Summary

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    Official Symbol
    ybdO
    Official Full Name
    putative LysR family DNA-binding transcriptional regulator YbdO
    Primary source
    ECOCYC:G6332
    Locus tag
    b0603
    See related
    ASAP:ABE-0002077
    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
    ECK0597
    Summary
    An amber mutation has been generated . [More information is available at EcoCyc: G6332].
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    Genomic context

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    Sequence:
    NC_000913.3 (636716..637618, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene methionine transaminase Neighboring gene ParB-like nuclease domain-containing protein YbdM Neighboring gene putative PAPS reductase/DUF3440 domain-containing protein YbdN Neighboring gene protein sulfenic acid reductase and chaperone DsbG Neighboring gene alkyl hydroperoxide reductase, AhpC component

    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. H-NS Facilitates Sequence Diversification of Horizontally Transferred DNAs during Their Integration in Host Chromosomes. Higashi K, et al. PLoS Genet, 2016 Jan. PMID 26789284, Free PMC Article
    2. Gene replacement without selection: regulated suppression of amber mutations in Escherichia coli. Herring CD, et al. Gene, 2003 Jun 5. PMID 12853150
    3. Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea. Pérez-Rueda E, et al. Comput Biol Chem, 2004 Dec. PMID 15556475
    4. Genome-wide screening of genes required for swarming motility in Escherichia coli K-12. Inoue T, et al. J Bacteriol, 2007 Feb. PMID 17122336, Free PMC Article
    5. The binary protein-protein interaction landscape of Escherichia coli. Rajagopala SV, et al. Nat Biotechnol, 2014 Mar. PMID 24561554, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The ybdO expression in these strains was still negatively regulated by H-NS, which reduced the effect of H-NS-independent regulation under normal growth conditions.
      Title: H-NS Facilitates Sequence Diversification of Horizontally Transferred DNAs during Their Integration in Host Chromosomes.
    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

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    putative LysR family DNA-binding transcriptional regulator YbdO

    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
      636716..637618 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_415136.1 putative LysR family DNA-binding transcriptional regulator YbdO [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_415136.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A6L7CGD2
      Conserved Domains (1) summary
      PRK11482
      Location:7 → 300
      PRK11482; DNA-binding transcriptional regulator
    Nucleotide Protein
    Heading Accession and Version

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