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csrD regulator of CsrB and CsrC decay [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 947702, updated on 3-Dec-2024

Summary

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Official Symbol
csrD
Official Full Name
regulator of CsrB and CsrC decay
Primary source
ECOCYC:EG10018
Locus tag
b3252
See related
ASAP:ABE-0010663
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
ECK3240; yhdA
Summary
In its c-di-GMP domains CsrD has HRSDF instead of GGDEF and ELM instead of EAL and does not appear to have either diguanylate cyclase or cyclic-di-GMP phosphodiesterase activities and the role of CsrD in csrB/C destabilization does not involve cyclic-di-GMP metabolism (Suzuki, 2006). [More information is available at EcoGene: EG10018]. CsrD controls the degradation of the small RNAs CsrB and CsrC, thereby regulating the activity of CsrA and affecting the expression of CsrA-regulated genes. [More information is available at EcoCyc: EG10018].
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Genomic context

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Sequence:
NC_000913.3 (3401392..3403332, complement)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene cell shape determining protein MreD Neighboring gene cell shape determining protein MreC Neighboring gene dynamic cytoskeletal protein MreB Neighboring gene acrylyl-CoA reductase Neighboring gene pseudo

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. Identification of YhdA as a regulator of the Escherichia coli carbon storage regulation system. Jonas K, et al. FEMS Microbiol Lett, 2006 Nov. PMID 17064377
  2. The Csr system regulates genome-wide mRNA stability and transcription and thus gene expression in Escherichia coli. Esquerré T, et al. Sci Rep, 2016 Apr 26. PMID 27112822, Free PMC Article
  3. Regulation of CsrB/C sRNA decay by EIIA(Glc) of the phosphoenolpyruvate: carbohydrate phosphotransferase system. Leng Y, et al. Mol Microbiol, 2016 Feb. PMID 26507976, Free PMC Article
  4. Determinations of the DNA sequence of the mreB gene and of the gene products of the mre region that function in formation of the rod shape of Escherichia coli cells. Doi M, et al. J Bacteriol, 1988 Oct. PMID 3049542, Free PMC Article
  5. Antagonistic control of the turnover pathway for the global regulatory sRNA CsrB by the CsrA and CsrD proteins. Vakulskas CA, et al. Nucleic Acids Res, 2016 Sep 19. PMID 27235416, Free PMC Article

See all (20) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Study shows that CsrD is involved in a massive positive transcriptional regulation in Escherichia coli.
    Title: The Csr system regulates genome-wide mRNA stability and transcription and thus gene expression in Escherichia coli.
  2. CsrD evolution was driven by the selective advantage of decoupling Csr small RNA decay from CsrA binding, connecting it instead to the availability of a preferred carbon source.
    Title: Antagonistic control of the turnover pathway for the global regulatory sRNA CsrB by the CsrA and CsrD proteins.
  3. Data indicate that CsrA proteins are sequestered by CsrB noncoding RNAs, and the degradation of CsrB RNAs is increased by CsrD proteins.
    Title: Rapid and robust signaling in the CsrA cascade via RNA-protein interactions and feedback regulation.
Submit: New GeneRIF Correction

General gene information

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Homology

Gene Ontology Provided by EcoCyc

Function Evidence Code Pubs
enables cyclic-guanylate-specific phosphodiesterase activity IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within RNA catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of RNA metabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
regulator of CsrB and CsrC decay

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
    3401392..3403332 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_417718.1 regulator of CsrB and CsrC decay [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_417718.1

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A376FVU1
    Conserved Domains (1) summary
    PRK11059
    Location:1 → 634
    PRK11059; regulatory protein CsrD; Provisional
Nucleotide Protein
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