Author: Tuplin, A.; Evans, D. J.; Buckley, A.; Jones, I. M.; Gould, E. A.; Gritsun, T. S.
Title: Replication enhancer elements within the open reading frame of tick-borne encephalitis virus and their evolution within the Flavivirus genus Document date: 2011_5_27
ID: 0aiaklrn_25
Snippet: A smaller terminal loop was revealed in the KFDV/ AHFV and KSIV sequences resulting in the formation of the tetraloop U(GCCA)A ( Figure 1B ). The presence of U:A as a loop-closing base pair has been shown to decrease tetraloop stability considerably; in combination with some intraloop sequences this results in intermolecular tensions that prevent the folded tetraloop from achieving a global thermodynamic minimum (38, 39) . Thus, despite the MFold.....
Document: A smaller terminal loop was revealed in the KFDV/ AHFV and KSIV sequences resulting in the formation of the tetraloop U(GCCA)A ( Figure 1B ). The presence of U:A as a loop-closing base pair has been shown to decrease tetraloop stability considerably; in combination with some intraloop sequences this results in intermolecular tensions that prevent the folded tetraloop from achieving a global thermodynamic minimum (38, 39) . Thus, despite the MFold-mediated predictions, a tetraloop may not form for KFDV/AHFV and KSIV or at least not be sufficiently stable for biologically significant (RNA-RNA or RNA-protein) interactions.
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