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

Gene ID: 948496, updated on 19-Sep-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.
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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
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