Gene Symbol: raiA
Description: cold shock protein associated with 30S ribosomal subunit
Alias: ECK2594, JW2578, yfiA
Species: Escherichia coli str. K-12 substr. MG1655

Top Publications

  1. Polikanov Y, Blaha G, Steitz T. How hibernation factors RMF, HPF, and YfiA turn off protein synthesis. Science. 2012;336:915-8 pubmed publisher
    ..is mediated by ribosome modulation factor (RMF) and hibernation promoting factor (HPF), or alternatively, the YfiA protein inactivates ribosomes as 70S monomers...
  2. Maki Y, Yoshida H, Wada A. Two proteins, YfiA and YhbH, associated with resting ribosomes in stationary phase Escherichia coli. Genes Cells. 2000;5:965-74 pubmed
    ..coli ribosomes in the stationary phase. These proteins are the products of ORFs named yfiA and yhbH...
  3. Zhukov I, Bayer P, Schölermann B, Ejchart A. 15N magnetic relaxation study of backbone dynamics of the ribosome-associated cold shock response protein Yfia of Escherichia coli. Acta Biochim Pol. 2007;54:769-75 pubmed
    In the solution structure of the ribosome-associated cold shock response protein Yfia of Escherichia coli in the free state two structural segments can be distinguished: a well structured, rigid N-terminal part displaying a ..
  4. Rak A, Kalinin A, Shcherbakov D, Bayer P. Solution structure of the ribosome-associated cold shock response protein Yfia of Escherichia coli. Biochem Biophys Res Commun. 2002;299:710-4 pubmed
    The solution structure of the ribosome-associated cold shock response protein Yfia of Escherichia coli was determined by nuclear magnetic resonance with a RMSD of 0.6A...
  5. Agafonov D, Kolb V, Spirin A. A novel stress-response protein that binds at the ribosomal subunit interface and arrests translation. Cold Spring Harb Symp Quant Biol. 2001;66:509-14 pubmed
  6. Agafonov D, Kolb V, Nazimov I, Spirin A. A protein residing at the subunit interface of the bacterial ribosome. Proc Natl Acad Sci U S A. 1999;96:12345-9 pubmed
    ..In the present work, the N-terminal sequence of the protein Y was determined and its gene was identified as yfia, an ORF located upstream the phe operon of E. coli. This 12.7-kDa protein was isolated and characterized...
  7. Parsons L, Eisenstein E, Orban J. Solution structure of HI0257, a bacterial ribosome binding protein. Biochemistry. 2001;40:10979-86 pubmed
    A novel bacterial ribosome binding protein, protein Y (also known as YfiA), was recently shown to reside at the 30S/50S subunit interface and to stabilize the ribosomal 70S complex against dissociation at low magnesium ion concentrations...
  8. Tikunova N, Khlebodarova T, Kachko A, Stepanenko I, Kolchanov N. A computational-experimental approach to designing a polyfunctional genosensor derived from the Escherichia coli gene yfiA promoter. Dokl Biochem Biophys. 2007;417:357-61 pubmed
  9. Bubunenko M, Baker T, Court D. Essentiality of ribosomal and transcription antitermination proteins analyzed by systematic gene replacement in Escherichia coli. J Bacteriol. 2007;189:2844-53 pubmed
    ..proteins are essential, while all four of the minor ribosome-associated proteins examined (RMF, SRA, YfiA, and YhbH), unlike most ribosomal proteins, are dispensable...

More Information


  1. Gavini N, Davidson B. pheAo mutants of Escherichia coli have a defective pheA attenuator. J Biol Chem. 1990;265:21532-5 pubmed
  2. Ueta M, Yoshida H, Wada C, Baba T, Mori H, Wada A. Ribosome binding proteins YhbH and YfiA have opposite functions during 100S formation in the stationary phase of Escherichia coli. Genes Cells. 2005;10:1103-12 pubmed publisher
    During the stationary phase of Escherichia coli growth, ribosomal structure changes drastically. Proteins RMF, YhbH, YfiA and SRA are expressed and bind to ribosome particles...
  3. El Sharoud W. Ribosome inactivation for preservation: concepts and reservations. Sci Prog. 2004;87:137-52 pubmed
    ..Such proteins include ribosome modulation factor (RMF), YfiA and YhbH. Examining the influence of RMF on the survival of E...
  4. Agafonov D, Spirin A. The ribosome-associated inhibitor A reduces translation errors. Biochem Biophys Res Commun. 2004;320:354-8 pubmed
    Recently we have reported about a novel stress response protein (pY or RaiA) associated with Escherichia coli ribosomes that inhibits translation at the aminoacyl-tRNA binding stage...
  5. Sato A, Watanabe T, Maki Y, Ueta M, Yoshida H, Ito Y, et al. Solution structure of the E. coli ribosome hibernation promoting factor HPF: Implications for the relationship between structure and function. Biochem Biophys Res Commun. 2009;389:580-5 pubmed publisher
    ..The hibernation promoting factor HPF plays a crucial role in 100S ribosome formation. However, YfiA, a known paralog of HPF inhibits 100S formation, although it shares high sequence similarity...
  6. Wilson D, Nierhaus K. The how and Y of cold shock. Nat Struct Mol Biol. 2004;11:1026-8 pubmed
  7. Salmon K, Hung S, Mekjian K, Baldi P, Hatfield G, Gunsalus R. Global gene expression profiling in Escherichia coli K12. The effects of oxygen availability and FNR. J Biol Chem. 2003;278:29837-55 pubmed
    ..In particular, we describe an approach for identifying gene expression patterns (clusters) obtained from multiple perturbation experiments based on a subset of genes that exhibit high probability for differential expression values. ..
  8. Agafonov D, Kolb V, Spirin A. Ribosome-associated protein that inhibits translation at the aminoacyl-tRNA binding stage. EMBO Rep. 2001;2:399-402 pubmed
    ..The function of the protein in adaptation of cells to environmental stress is discussed. ..
  9. Hudson G, Davidson B. Nucleotide sequence and transcription of the phenylalanine and tyrosine operons of Escherichia coli K12. J Mol Biol. 1984;180:1023-51 pubmed
  10. Vila Sanjurjo A, Schuwirth B, Hau C, Cate J. Structural basis for the control of translation initiation during stress. Nat Struct Mol Biol. 2004;11:1054-9 pubmed
    ..The mechanism used by protein Y to reduce translation initiation during stress and quickly release ribosomes for renewed translation initiation may therefore occur widely in nature. ..
  11. Saint Ruf C, Taddei F, Matic I. Stress and survival of aging Escherichia coli rpoS colonies. Genetics. 2004;168:541-6 pubmed
    ..By measuring cell viability and by transcriptome analysis, here we show that rpoS cells as well as wild-type cells survive when they form colonies on solid media. ..
  12. Kalinin A, Rak A, Shcherbakov D, Bayer P. 1H, 13C and 15N resonance assignments of the ribosome-associated cold shock response protein Yfia of Escherichia coli. J Biomol NMR. 2002;23:335-6 pubmed
  13. Ye K, Serganov A, Hu W, Garber M, Patel D. Ribosome-associated factor Y adopts a fold resembling a double-stranded RNA binding domain scaffold. Eur J Biochem. 2002;269:5182-91 pubmed
    ..It appears probable that functional properties of pY are not identical to those of dsRBDs, as the postulated RNA-binding site in pY does not coincide with the RNA-binding surface of the dsRBDs...