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    rsd regulator of sigma D [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 948496, updated on 3-Dec-2024

    Summary

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    Official Symbol
    rsd
    Official Full Name
    regulator of sigma D
    Primary source
    ECOCYC:EG11738
    Locus tag
    b3995
    See related
    ASAP:ABE-0013059
    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
    ECK3987; yjaE
    Summary
    Rsd is an anti-sigma factor; it binds specifically to the major sigma factor sigma 70, but not to alternative sigma factors . [More information is available at EcoCyc: EG11738].
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    Genomic context

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    Sequence:
    NC_000913.3 (4196332..4196808, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene sulfur carrier protein ThiS adenylyltransferase Neighboring gene thiamine phosphate synthase Neighboring gene phosphomethylpyrimidine synthase Neighboring gene RNA decapping hydrolase Neighboring gene uroporphyrinogen decarboxylase

    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. The histidine phosphocarrier protein, HPr, binds to the highly thermostable regulator of sigma D protein, Rsd, and its isolated helical fragments. Neira JL, et al. Arch Biochem Biophys, 2018 Feb 1. PMID 29288053
    2. The E. coli anti-sigma factor Rsd: studies on the specificity and regulation of its expression. Hofmann N, et al. PLoS One, 2011 May 6. PMID 21573101, Free PMC Article
    3. A global view of Escherichia coli Rsd protein and its interactions. Piper SE, et al. Mol Biosyst, 2009 Dec. PMID 19763331
    4. Regulation of bacterial RNA polymerase sigma factor activity: a structural perspective. Campbell EA, et al. Curr Opin Microbiol, 2008 Apr. PMID 18375176, Free PMC Article
    5. A stationary phase protein in Escherichia coli with binding activity to the major sigma subunit of RNA polymerase. Jishage M, et al. Proc Natl Acad Sci U S A, 1998 Apr 28. PMID 9560209, Free PMC Article

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Rsd is a carbon source-dependent regulator of the stringent response in E. coli
      Title: Rsd balances (p)ppGpp level by stimulating the hydrolase activity of SpoT during carbon source downshift in Escherichia coli.
    2. Therefore, binding between Rsd and HPr(sc) was modulated by the two helices H3 and H4 of Rsd, and the regions around the active site of HPr(sc). This implies that specific fragments of Rsd and HPr(sc) can be used to interfere with other protein-protein interactions (PPIs) of each other protein.
      Title: The histidine phosphocarrier protein, HPr, binds to the highly thermostable regulator of sigma D protein, Rsd, and its isolated helical fragments.
    3. Study revealed that Rsd is able to interact with sigma(70), with the core enzyme of RNA polymerase and is able to form dimers in solution.
      Title: The E. coli anti-sigma factor Rsd: studies on the specificity and regulation of its expression.
    4. Levels of Rsd, RNA polymerase, sigma(70) and the alternative sigma(38) factor are measured.
      Title: A global view of Escherichia coli Rsd protein and its interactions.
    5. The 2.6 A-resolution X-ray crystal structure of Rsd bound to sigma(70) domain 4 (sigma(70)(4)), the primary determinant for Rsd binding within sigma(70), was determined.
      Title: Crystal structure of the Escherichia coli regulator of sigma70, Rsd, in complex with sigma70 domain 4.
    6. N-terminus verified by Edman degradation on complete protein
      Title: A stationary phase protein in Escherichia coli with binding activity to the major sigma subunit of RNA polymerase.
    7. sequence comparisons of T4 AsiA with Rsd, indicate that these proteins share conserved amino acid residues at positions important for the binding of T4 AsiA to sigma70 region 4
      Title: A family of anti-sigma70 proteins in T4-type phages and bacteria that are similar to AsiA, a Transcription inhibitor and co-activator of bacteriophage T4.
    8. experiments support a model in which the role of Rsd is primarily to sequester sigma(70), thereby increasing the levels of RNA polymerase containing the alternative sigma(38) factor
      Title: The Escherichia coli regulator of sigma 70 protein, Rsd, can up-regulate some stress-dependent promoters by sequestering sigma 70.
    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 bacterial-type RNA polymerase core enzyme binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables sigma factor antagonist activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of DNA-templated transcription NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of nucleotide catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within stringent response IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of sigma factor antagonist complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    regulator of sigma D

    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
      4196332..4196808 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_418423.1 regulator of sigma D [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_418423.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A7A6XDM8
      Conserved Domains (1) summary
      COG3160
      Location:1 → 158
      Rsd; Regulator of sigma D [Transcription]
    Nucleotide Protein
    Heading Accession and Version

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