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    rhaR DNA-binding transcriptional activator RhaR [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 948396, updated on 3-Dec-2024

    Summary

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    Official Symbol
    rhaR
    Official Full Name
    DNA-binding transcriptional activator RhaR
    Primary source
    ECOCYC:EG10842
    Locus tag
    b3906
    See related
    ASAP:ABE-0012747
    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
    ECK3899; rhaC1
    Summary
    A GTG start codon 31 codons internal to the previously annotated start codon is predicted based on conservation with Salmonella, eliminating the overlap with rhaS, and having a better RBS (E. [More information is available at EcoGene: EG10842].
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    Genomic context

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    Sequence:
    NC_000913.3 (4098646..4099494)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene L-rhamnose isomerase Neighboring gene rhamnulokinase Neighboring gene DNA-binding transcriptional activator RhaS Neighboring gene rhamnose/lyxose:H(+) symporter Neighboring gene superoxide dismutase (Mn) Neighboring gene 2-dehydro-3-deoxy-D-gluconate:H(+) symporter

    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. Transcription from the rha operon psr promoter. Tobin JF, et al. J Mol Biol, 1990 Jan 5. PMID 1688950
    2. Differences in the mechanism of the allosteric l-rhamnose responses of the AraC/XylS family transcription activators RhaS and RhaR. Kolin A, et al. Mol Microbiol, 2008 Apr. PMID 18366439, Free PMC Article
    3. Purification and properties of RhaR, the positive regulator of the L-rhamnose operons of Escherichia coli. Tobin JF, et al. J Mol Biol, 1990 Jan 5. PMID 2405166
    4. Amino acid-DNA contacts by RhaS: an AraC family transcription activator. Bhende PM, et al. J Bacteriol, 1999 Sep. PMID 10464186, Free PMC Article
    5. Interdependence of activation at rhaSR by cyclic AMP receptor protein, the RNA polymerase alpha subunit C-terminal domain, and rhaR. Holcroft CC, et al. J Bacteriol, 2000 Dec. PMID 11073923, Free PMC Article

    See all (21) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Results indicate that RhaS negative autoregulation involves RhaS competition with RhaR for binding to the RhaR binding site at rhaSR.
      Title: The AraC/XylS family activator RhaS negatively autoregulates rhaSR expression by preventing cyclic AMP receptor protein activation.
    2. CRP activates transcription from rhaSR as it would at simple class I promoters, albeit from a relatively distant position
      Title: Cyclic AMP receptor protein and RhaR synergistically activate transcription from the L-rhamnose-responsive rhaSR promoter in Escherichia coli.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    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
    		  
    enables sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in rhamnose metabolic process 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
    DNA-binding transcriptional activator RhaR

    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
      4098646..4099494
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_418342.2 DNA-binding transcriptional activator RhaR [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_418342.2

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A7T8PUT3
      Conserved Domains (1) summary
      PRK13500
      Location:1 → 282
      PRK13500; HTH-type transcriptional activator RhaR
    Nucleotide Protein
    Heading Accession and Version

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