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cspD DNA replication inhibitor CspD [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 945669, updated on 4-Feb-2024

Summary

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Gene symbol
cspD
Gene description
DNA replication inhibitor CspD
Primary source
ASAP:ABE-0002991
Locus tag
b0880
See related
ECOCYC:EG11111
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
cspH; ECK0871; ybjA
Summary
CspD forms a homodimer in solution and is able to bind single-stranded DNA and RNA and packs ssDNA into structures that are distinguishable from SSB-coated DNA. [More information is available at EcoCyc: EG11111].
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Genomic context

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Sequence:
NC_000913.3 (922366..922590, complement)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene DUF2813 domain-containing protein YbjD Neighboring gene DUF535 domain-containing protein YbjX Neighboring gene ABC-type tripartite efflux pump membrane fusion protein Neighboring gene ABC-type tripartite efflux pump ATP binding/membrane subunit Neighboring gene protein YljB Neighboring gene specificity factor for ClpA-ClpP chaperone-protease complex

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. Growth-phase-dependent expression of cspD, encoding a member of the CspA family in Escherichia coli. Yamanaka K, et al. J Bacteriol, 1997 Aug. PMID 9260955, Free PMC Article
  2. The product of unr, the highly conserved gene upstream of N-ras, contains multiple repeats similar to the cold-shock domain (CSD), a putative DNA-binding motif. Doniger J, et al. New Biol, 1992 Apr. PMID 1622933
  3. Cyclic AMP receptor protein regulates cspD, a bacterial toxin gene, in Escherichia coli. Uppal S, et al. J Bacteriol, 2014 Apr. PMID 24509317, Free PMC Article
  4. The Escherichia coli replication inhibitor CspD is subject to growth-regulated degradation by the Lon protease. Langklotz S, et al. Mol Microbiol, 2011 Jun. PMID 21435040
  5. Different in vivo localization of the Escherichia coli proteins CspD and CspA. Giangrossi M, et al. FEMS Microbiol Lett, 2001 Aug 21. PMID 11520610

See all (28) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Identification of Attenuators of Transcriptional Termination: Implications for RNA Regulation in Escherichia coli.
    Title: Identification of Attenuators of Transcriptional Termination: Implications for RNA Regulation in Escherichia coli.
  2. The results from in vitro transcription assays demonstrated that CRP activates PcspD transcription in the absence of additional factors other than RNA polymerase.
    Title: Cyclic AMP receptor protein regulates cspD, a bacterial toxin gene, in Escherichia coli.
  3. CspD is subject to growth-regulated degradation by the Lon protease.
    Title: The Escherichia coli replication inhibitor CspD is subject to growth-regulated degradation by the Lon protease.
  4. The MqsR/MqsA TA system controls cell physiology via its own toxicity as well as through its regulation of another toxin, CspD.
    Title: Escherichia coli toxin/antitoxin pair MqsR/MqsA regulate toxin CspD.
  5. N-terminus verified by Edman degradation on complete protein
    Title: Small genes/gene-products in Escherichia coli K-12.
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 RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein homodimerization activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables single-stranded DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables toxin activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in modulation of process of another organism IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within negative regulation of DNA replication IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of DNA replication IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within response to starvation IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
DNA replication inhibitor CspD

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
    922366..922590 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_415401.1 DNA replication inhibitor CspD [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_415401.1

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A192CKS7, A0AA36KVR3, D6I819, Q1RE43
    Conserved Domains (1) summary
    cl09927
    Location:1 → 74
    S1_like; Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains ...
Nucleotide Protein
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