deaD

Summary

Gene Symbol: deaD
Description: ATP-dependent RNA helicase
Alias: ECK3150, JW5531, csdA, mssB, rhlD
Species: Escherichia coli str. K-12 substr. MG1655

Top Publications

  1. Turner A, Love C, Alexander R, Jones P. Mutational analysis of the Escherichia coli DEAD box protein CsdA. J Bacteriol. 2007;189:2769-76 pubmed
    The Escherichia coli cold shock protein CsdA is a member of the DEAD box family of ATP-dependent RNA helicases, which share a core of nine conserved motifs...
  2. Prud homme Généreux A, Beran R, Iost I, Ramey C, Mackie G, Simons R. Physical and functional interactions among RNase E, polynucleotide phosphorylase and the cold-shock protein, CsdA: evidence for a 'cold shock degradosome'. Mol Microbiol. 2004;54:1409-21 pubmed
    ..Here we demonstrate that one member of this family, CsdA, whose expression is induced by cold shock, interacts physically and functionally with RNase E...
  3. Bizebard T, Ferlenghi I, Iost I, Dreyfus M. Studies on three E. coli DEAD-box helicases point to an unwinding mechanism different from that of model DNA helicases. Biochemistry. 2004;43:7857-66 pubmed
    ..We have compared the ATPase and helicase activities of three E. coli DEAD-box proteins, CsdA, RhlE and SrmB...
  4. Charollais J, Dreyfus M, Iost I. CsdA, a cold-shock RNA helicase from Escherichia coli, is involved in the biogenesis of 50S ribosomal subunit. Nucleic Acids Res. 2004;32:2751-9 pubmed
    b>CsdA, a DEAD-box protein from Escherichia coli, has been proposed to participate in a variety of processes, such as translation initiation, gene regulation after cold-shock, mRNA decay and biogenesis of the small ribosomal subunit...
  5. Iost I, Dreyfus M. mRNAs can be stabilized by DEAD-box proteins. Nature. 1994;372:193-6 pubmed
    ..But the overexpression of DEAD-box proteins greatly improves this low yield by stabilizing the corresponding transcripts...
  6. Khemici V, Toesca I, Poljak L, Vanzo N, Carpousis A. The RNase E of Escherichia coli has at least two binding sites for DEAD-box RNA helicases: functional replacement of RhlB by RhlE. Mol Microbiol. 2004;54:1422-30 pubmed
    ..We show that three other DEAD-box helicases, SrmB, RhlE and CsdA also bind to RNase E in vitro...
  7. Moll I, Grill S, GRUNDLING A, Blasi U. Effects of ribosomal proteins S1, S2 and the DeaD/CsdA DEAD-box helicase on translation of leaderless and canonical mRNAs in Escherichia coli. Mol Microbiol. 2002;44:1387-96 pubmed
    ..The deaD/csdA gene, encoding the "DeaD/CsdA" DEAD-box helicase, has been isolated as a multicopy suppressor of rpsB(ts) ..
  8. Yamanaka K, Inouye M. Selective mRNA degradation by polynucleotide phosphorylase in cold shock adaptation in Escherichia coli. J Bacteriol. 2001;183:2808-16 pubmed
    ..In a poly(A) polymerase mutant and a CsdA RNA helicase mutant, CSP expression upon cold shock was significantly prolonged, indicating that PNPase in concert ..
  9. Brandi A, Spurio R, Gualerzi C, Pon C. Massive presence of the Escherichia coli 'major cold-shock protein' CspA under non-stress conditions. EMBO J. 1999;18:1653-9 pubmed
    ..The cspA mRNA instability is due to its 5' untranslated leader and is counteracted in vivo by the cold-shock DeaD box RNA helicase (CsdA).

More Information

Publications39

  1. Lu J, Aoki H, Ganoza M. Molecular characterization of a prokaryotic translation factor homologous to the eukaryotic initiation factor eIF4A. Int J Biochem Cell Biol. 1999;31:215-29 pubmed
    ..Here we show that one of the factors (W2) required to reconstitute translation in E. coli is encoded by the deaD gene which harbors 87% amino acid sequence similarly to the eukaryotic (eIF4A)...
  2. Raynal L, Carpousis A. Poly(A) polymerase I of Escherichia coli: characterization of the catalytic domain, an RNA binding site and regions for the interaction with proteins involved in mRNA degradation. Mol Microbiol. 1999;32:765-75 pubmed
    ..coli DEAD box RNA helicases...
  3. Peil L, Virumae K, Remme J. Ribosome assembly in Escherichia coli strains lacking the RNA helicase DeaD/CsdA or DbpA. FEBS J. 2008;275:3772-82 pubmed publisher
    ..We describe ribosome biogenesis in Escherichia coli strains lacking RNA helicase DeaD (CsdA) or DbpA...
  4. Iost I, Dreyfus M. DEAD-box RNA helicases in Escherichia coli. Nucleic Acids Res. 2006;34:4189-97 pubmed
    In spite of their importance in RNA metabolism, the function of DExD/H-box proteins (including DEAD-box proteins) is poorly understood at the molecular level...
  5. Toone W, Rudd K, Friesen J. deaD, a new Escherichia coli gene encoding a presumed ATP-dependent RNA helicase, can suppress a mutation in rpsB, the gene encoding ribosomal protein S2. J Bacteriol. 1991;173:3291-302 pubmed
    ..Our new gene, called deaD, was cloned as a gene dosage-dependent suppressor of temperature-sensitive mutations in rpsB, the gene encoding ..
  6. Jones P, Mitta M, Kim Y, Jiang W, Inouye M. Cold shock induces a major ribosomal-associated protein that unwinds double-stranded RNA in Escherichia coli. Proc Natl Acad Sci U S A. 1996;93:76-80 pubmed
    ..The protein was identified to be the product of the deaD gene (reassigned csdA) encoding a DEAD-box protein...
  7. Fang L, Hou Y, Inouye M. Role of the cold-box region in the 5' untranslated region of the cspA mRNA in its transient expression at low temperature in Escherichia coli. J Bacteriol. 1998;180:90-5 pubmed
    Upon temperature downshift, a group of proteins called cold shock proteins, such as CspA, CspB, and CsdA, are transiently induced in Escherichia coli...
  8. Awano N, Xu C, Ke H, Inoue K, Inouye M, Phadtare S. Complementation analysis of the cold-sensitive phenotype of the Escherichia coli csdA deletion strain. J Bacteriol. 2007;189:5808-15 pubmed
    ..from 37 degrees C to 15 degrees C and is characterized by induction of several cold shock proteins, including CsdA, during the acclimation phase...
  9. Jiang M, Datta K, Walker A, Strahler J, Bagamasbad P, Andrews P, et al. The Escherichia coli GTPase CgtAE is involved in late steps of large ribosome assembly. J Bacteriol. 2006;188:6757-70 pubmed
    ..Finally, CgtA(E) cofractionates with the mature 50S but not with intermediate particles accumulated in other large ribosome assembly mutants. ..
  10. Marcaida M, DePristo M, Chandran V, Carpousis A, Luisi B. The RNA degradosome: life in the fast lane of adaptive molecular evolution. Trends Biochem Sci. 2006;31:359-65 pubmed
  11. Kalman M, Murphy H, Cashel M. rhlB, a new Escherichia coli K-12 gene with an RNA helicase-like protein sequence motif, one of at least five such possible genes in a prokaryote. New Biol. 1991;3:886-95 pubmed
    ..The multiplicity of such genes in a prokaryote raises the possibility of important roles for the corresponding class of biologically widespread proteins. ..
  12. Kitahara K, Suzuki T. The ordered transcription of RNA domains is not essential for ribosome biogenesis in Escherichia coli. Mol Cell. 2009;34:760-6 pubmed publisher
    ..However, severe growth defects of all CPs were found in the absence of the DEAD box RNA helicase deaD, indicating that DeaD assists in the efficient assembly of each subunit in the cell.
  13. Kaberdin V, Lin Chao S. Unraveling new roles for minor components of the E. coli RNA degradosome. RNA Biol. 2009;6:402-5 pubmed
    ..Here we briefly review these findings and discuss their implications for understanding the multifaceted mechanisms controlling degradosome functions in vivo. ..
  14. Jagessar K, Jain C. Functional and molecular analysis of Escherichia coli strains lacking multiple DEAD-box helicases. RNA. 2010;16:1386-92 pubmed publisher
    b>DEAD-box RNA helicases are enzymes that unwind RNA duplexes and are found in virtually all organisms. Most organisms harbor multiple DEAD-box helicases, suggesting that these factors participate in distinct aspects of RNA metabolism...
  15. Yohannes E, Thurber A, Wilks J, Tate D, Slonczewski J. Polyamine stress at high pH in Escherichia coli K-12. BMC Microbiol. 2005;5:59 pubmed
    ..During log-phase growth at pH 7.0, 1 mM spermine induced eight proteins, including PykF, GlpK, SerS, DeaD, OmpC and OmpF...
  16. Regonesi M, Del Favero M, Basilico F, Briani F, Benazzi L, Tortora P, et al. Analysis of the Escherichia coli RNA degradosome composition by a proteomic approach. Biochimie. 2006;88:151-61 pubmed
    ..In addition, we show that normalized score values obtain by MudPIT analysis may be taken as quantitative estimates of the relative protein abundance in different degradosome preparations. ..
  17. Lee J, Kim M, Cho J, Kim S. Enhanced expression of tandem multimers of the antimicrobial peptide buforin II in Escherichia coli by the DEAD-box protein and trxB mutant. Appl Microbiol Biotechnol. 2002;58:790-6 pubmed
    ..of a cationic antimicrobial peptide, buforin II, fused to an anionic peptide, we studied the effect of the DEAD-box protein and the trxB mutant on the expression of tandem multimers...
  18. Inouye M, Phadtare S. Cold shock response and adaptation at near-freezing temperature in microorganisms. Sci STKE. 2004;2004:pe26 pubmed
    ..This emphasizes the fact that different groups of microorganisms exhibit distinct types of cold shock responses. ..
  19. Sozhamannan S, Stitt B. Effects on mRNA degradation by Escherichia coli transcription termination factor Rho and pBR322 copy number control protein Rop. J Mol Biol. 1997;268:689-703 pubmed
    ..The inability of the RNA-binding proteins SrmB and DeaD to reverse the rho mutant phenotype when each is overexpressed implies that the required RNA interactions are ..
  20. Schmid S, Linder P. D-E-A-D protein family of putative RNA helicases. Mol Microbiol. 1992;6:283-91 pubmed
    ..Most of the genes encoding such proteins have been isolated from yeast, on which we will focus in this review. From sequence data, three of the members form a subfamily, the D-E-A-H subfamily. ..
  21. Sato A, Kobayashi G, Hayashi H, Yoshida H, Wada A, Maeda M, et al. The GTP binding protein Obg homolog ObgE is involved in ribosome maturation. Genes Cells. 2005;10:393-408 pubmed
    ..that ObgE associates with several specific ribosomal proteins of 30S and 50S subunits, as well as RNA helicase CsdA. Purified ObgE cosediments with 16S and 23S ribosomal RNAs in vitro in the presence of GTP...
  22. Carpousis A. The RNA degradosome of Escherichia coli: an mRNA-degrading machine assembled on RNase E. Annu Rev Microbiol. 2007;61:71-87 pubmed
  23. Yamanaka K, Ogura T, Koonin E, Niki H, Hiraga S. Multicopy suppressors, mssA and mssB, of an smbA mutation of Escherichia coli. Mol Gen Genet. 1994;243:9-16 pubmed
    ..The mssB gene was found to be identical to the deaD gene (69 min), which encodes a putative RNA helicase...
  24. Ganoza M, Fox J. Isolation of a soluble factor needed for protein synthesis with various messenger ribonucleic acids other than poly(U). J Biol Chem. 1974;249:1037-43 pubmed
  25. Stampfl S, Doetsch M, Beich Frandsen M, Schroeder R. Characterization of the kinetics of RNA annealing and strand displacement activities of the E. coli DEAD-box helicase CsdA. RNA Biol. 2013;10:149-56 pubmed publisher
    b>CsdA is one of five E. coli DEAD-box helicases and as a cold-shock protein assists RNA structural remodeling at low temperatures...
  26. Butland G, Krogan N, Xu J, Yang W, Aoki H, Li J, et al. Investigating the in vivo activity of the DeaD protein using protein-protein interactions and the translational activity of structured chloramphenicol acetyltransferase mRNAs. J Cell Biochem. 2007;100:642-52 pubmed
    ..interaction detection approach together with focused follow-up experiments to study the function of the DeaD protein in Escherichia coli...
  27. Ganoza M, Kiel M, Aoki H. Evolutionary conservation of reactions in translation. Microbiol Mol Biol Rev. 2002;66:460-85, table of contents pubmed
    ..The possible mechanisms of a new initiation factor and two elongation factors are discussed in this context. ..
  28. El Sharoud W, Graumann P. Cold shock proteins aid coupling of transcription and translation in bacteria. Sci Prog. 2007;90:15-27 pubmed
    ..Members of both protein families have recently been shown to interact, suggesting that a two-step process achieves the coupling process, removal of secondary mRNA structures through CSHs and prevention of reformation through CSPs. ..
  29. Jain C. The E. coli RhlE RNA helicase regulates the function of related RNA helicases during ribosome assembly. RNA. 2008;14:381-9 pubmed
    Escherichia coli contains five members of the DEAD-box RNA helicase family, a ubiquitous class of proteins characterized by their ability to unwind RNA duplexes...
  30. Vakulskas C, Pannuri A, Cortés Selva D, Zere T, AHMER B, Babitzke P, et al. Global effects of the DEAD-box RNA helicase DeaD (CsdA) on gene expression over a broad range of temperatures. Mol Microbiol. 2014;92:945-58 pubmed publisher
    ..We show that two DEAD-box RNA helicases, DeaD and SrmB, activate csrB/C expression by different pathways...