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UPSK RNA

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UPSK RNA
Predicted secondary structure and sequence conservation of UPSK
Identifiers
SymbolUPSK
RfamRF00390
Other data
RNA typeCis-reg
Domain(s)Viruses
SOSO:0000233
PDB structuresPDBe

The Upstream pseudoknot (UPSK) domain is an RNA element found in the turnip yellow mosaic virus, beet virus Q, barley stripe mosaic virus and tobacco mosaic virus, which is thought to be needed for efficient transcription. Disruption of the pseudoknot structure gives rise to a 50% drop in transcription efficiency. This element acts in conjunction with the Tymovirus/Pomovirus tRNA-like 3' UTR element to enhance translation.

References

  1. Koenig R, Pleij CW, Beier C, Commandeur U (August 1998). "Genome properties of beet virus Q, a new furo-like virus from sugarbeet, determined from unpurified virus". J. Gen. Virol. 79 (8): 2027–2036. doi:10.1099/0022-1317-79-8-2027. PMID 9714254.
  2. Solovyev AG, Savenkov EI, Agranovsky AA, Morozov SY (May 1996). "Comparisons of the genomic cis-elements and coding regions in RNA beta components of the hordeiviruses barley stripe mosaic virus, lychnis ringspot virus, and poa semilatent virus". Virology. 219 (1): 9–18. doi:10.1006/viro.1996.0217. PMID 8623558.
  3. Felden B, Florentz C, Giegé R, Westhof E (March 1996). "A central pseudoknotted three-way junction imposes tRNA-like mimicry and the orientation of three 5' upstream pseudoknots in the 3' terminus of tobacco mosaic virus RNA". RNA. 2 (3): 201–212. PMC 1369363. PMID 8608444.
  4. Deiman, BA; Kortlever RM; Pleij CW (1997). "The role of the pseudoknot at the 3' end of turnip yellow mosaic virus RNA in minus-strand synthesis by the viral RNA-dependent RNA polymerase". J Virol. 71 (8): 5990–5996. doi:10.1128/JVI.71.8.5990-5996.1997. PMC 191855. PMID 9223489.
  5. Matsuda, D; Dreher TW (2004). "The tRNA-like structure of Turnip yellow mosaic virus RNA is a 3'-translational enhancer". Virology. 321 (1): 36–46. doi:10.1016/j.virol.2003.10.023. PMID 15033563.

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