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deaD ATP-dependent RNA helicase DeaD [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 947674, updated on 26-Mar-2025

Summary

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Official Symbol
deaD
Official Full Name
ATP-dependent RNA helicase DeaD
Primary source
ECOCYC:EG10215
Locus tag
b3162
See related
ASAP:ABE-0010392
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
csdA; ECK3150; mssB; rhlD
Summary
Mechanism of DeaD 50S biogenesis differs from that for SrmB 50S biogenesis. stabilizes exposed mRNA, possibly by protecting or destabilizing secondary structure of RNase E sites. [More information is available at EcoGene: EG10215]. The CsdA protein participates in the assembly of the large subunit of the ribosome . [More information is available at EcoCyc: EG10215].
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Genomic context

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Sequence:
NC_000913.3 (3305971..3307860, complement)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene putative luciferase-like monooxygenase YhbW Neighboring gene tryptophan:H(+) symporter Mtr Neighboring gene uncharacterized protein YrbN Neighboring gene lipoprotein NlpI Neighboring gene polynucleotide phosphorylase

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. Insights into the Structure of Dimeric RNA Helicase CsdA and Indispensable Role of Its C-Terminal Regions. Xu L, et al. Structure, 2017 Dec 5. PMID 29107486
  2. Global effects of the DEAD-box RNA helicase DeaD (CsdA) on gene expression over a broad range of temperatures. Vakulskas CA, et al. Mol Microbiol, 2014 Jun. PMID 24708042, Free PMC Article
  3. Molecular characterization of a prokaryotic translation factor homologous to the eukaryotic initiation factor eIF4A. Lu J, et al. Int J Biochem Cell Biol, 1999 Jan. PMID 10216955
  4. Characterization of the kinetics of RNA annealing and strand displacement activities of the E. coli DEAD-box helicase CsdA. Stampfl S, et al. RNA Biol, 2013 Jan. PMID 23291905, Free PMC Article
  5. Functional and molecular analysis of Escherichia coli strains lacking multiple DEAD-box helicases. Jagessar KL, et al. RNA, 2010 Jul. PMID 20484467, Free PMC Article

See all (51) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Interacts with RNase E
    Title: Physical and functional interactions among RNase E, polynucleotide phosphorylase and the cold-shock protein, CsdA: evidence for a 'cold shock degradosome'.
  2. N-terminus verified by Edman degradation on mature peptide
    Title: Cold shock induces a major ribosomal-associated protein that unwinds double-stranded RNA 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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Homology

Gene Ontology Provided by EcoCyc

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP hydrolysis activity IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA helicase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA helicase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables RNA strand annealing activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA strand annealing activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity, acting on acid anhydrides IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleotide 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 
Process Evidence Code Pubs
involved_in RNA catabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within RNA catabolic process IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in cellular response to cold IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within cellular response to cold IEP
Inferred from Expression Pattern
more info
 PubMed 
acts_upstream_of_or_within cellular response to cold IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in mRNA stabilization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within positive regulation of translation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in response to cold IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within response to radiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in ribosomal large subunit assembly IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within ribosomal large subunit assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
 PubMed 
colocalizes_with ribosome IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
ATP-dependent RNA helicase DeaD

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
    3305971..3307860 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_417631.2 ATP-dependent RNA helicase DeaD [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_417631.2

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A5B9AS65, A0A5D8MVY1, A0A792HRV4
    Conserved Domains (1) summary
    PRK11634
    Location:1 → 629
    PRK11634; ATP-dependent RNA helicase DeaD; Provisional
Nucleotide Protein
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