scholarly journals Dengue virus strain 2 capsid protein switches the annealing pathway and reduces intrinsic dynamics of the conserved 5’ untranslated region

RNA Biology ◽  
2021 ◽  
pp. 1-14
Author(s):  
Xin Ee Yong ◽  
Palur Venkata Raghuvamsi ◽  
Ganesh S. Anand ◽  
Thorsten Wohland ◽  
Kamal K. Sharma
2020 ◽  
Author(s):  
Xin Ee Yong ◽  
Palur Venkata Raghuvamsi ◽  
Ganesh S. Anand ◽  
Thorsten Wohland ◽  
Kamal K. Sharma

ABSTRACTThe capsid protein of Dengue Virus strain 2 (DENV2C) is a structural protein with RNA chaperone activity that promotes multiple nucleic acid structural rearrangements, critical for transcription of the single-stranded positive-sense DENV2 genomic RNA. Annealing of the conserved 5’ untranslated region (5’UTR) to either its complementary sequence or to the 3’ untranslated region (3’UTR) occurs during (+)/(−) ds-RNA formation and (+) RNA circularization, respectively, both essential steps during DENV RNA replication. We investigated the effect of DENV2C on the annealing mechanism of two hairpin structures from the 5’UTR region (21-nt upstream AUG region (5’UAR) and 23-nt capsid-coding hairpin (5’cHP)) to their complementary sequences during (+)/(−) ds-RNA formation and (+) RNA circularization. Using fluorescence spectroscopy, DENV2C was found to switch annealing reactions nucleated mainly through kissing-loop intermediates to stem-stem interactions during (+)/(−) ds-RNA formation while it promotes annealing mainly through kissing-loop interactions during the (+) RNA circularization. Using FRET-FCS and trFRET, we determined that DENV2C exerts RNA chaperone activities by modulating intrinsic dynamics and by reducing the kinetically trapped unfavorable conformations of the 5’UTR sequence. Thus, DENV2C is likely to facilitate genome folding into functional conformations required for replication, playing a role in modulating (+)/(−) ds-RNA formation and (+) RNA circularization.


2013 ◽  
Vol 104 (2) ◽  
pp. 415a
Author(s):  
Filomena A. Carvalho ◽  
Ivo C. Martins ◽  
Fabiana A. Carneiro ◽  
Iranaia Assunção-Miranda ◽  
André F. Faustino ◽  
...  

2017 ◽  
Vol 12 (5) ◽  
pp. 1257-1268 ◽  
Author(s):  
Vera Neves ◽  
Frederico Aires-da-Silva ◽  
Maurício Morais ◽  
Lurdes Gano ◽  
Elisabete Ribeiro ◽  
...  

Author(s):  
Iris Cadima-Couto ◽  
Alexandra Tauzin ◽  
João M. Freire ◽  
Tiago N. Figueira ◽  
Rúben D. M. Silva ◽  
...  

2013 ◽  
Vol 87 (24) ◽  
pp. 13094-13106 ◽  
Author(s):  
C. A. Balinsky ◽  
H. Schmeisser ◽  
S. Ganesan ◽  
K. Singh ◽  
T. C. Pierson ◽  
...  

2003 ◽  
Vol 77 (2) ◽  
pp. 1653-1657 ◽  
Author(s):  
Stephen S. Whitehead ◽  
Barry Falgout ◽  
Kathryn A. Hanley ◽  
Joseph E. Blaney, ◽  
Lewis Markoff ◽  
...  

ABSTRACT The Δ30 deletion mutation, which was originally created in dengue virus type 4 (DEN4) by the removal of nucleotides 172 to 143 from the 3′ untranslated region (3′ UTR), was introduced into a homologous region of wild-type (wt) dengue virus type 1 (DEN1). The resulting virus, rDEN1Δ30, was attenuated in rhesus monkeys to a level similar to that of the rDEN4Δ30 vaccine candidate. rDEN1Δ30 was more attenuated in rhesus monkeys than the previously described vaccine candidate, rDEN1mutF, which also contains mutations in the 3′ UTR, and both vaccines were highly protective against challenge with wt DEN1. Both rDEN1Δ30 and rDEN1mutF were also attenuated in HuH-7-SCID mice. However, neither rDEN1Δ30 nor rDEN1mutF showed restricted replication following intrathoracic inoculation in the mosquito Toxorhynchites splendens. The ability of the Δ30 mutation to attenuate both DEN1 and DEN4 viruses suggests that a tetravalent DEN vaccine could be generated by introduction of the Δ30 mutation into wt DEN viruses belonging to each of the four serotypes.


2009 ◽  
Vol 154 (8) ◽  
pp. 1211-1221 ◽  
Author(s):  
Chunya Puttikhunt ◽  
Prapapun Ong-ajchaowlerd ◽  
Tanapan Prommool ◽  
Sutha Sangiambut ◽  
Janjuree Netsawang ◽  
...  

2003 ◽  
Vol 77 (12) ◽  
pp. 7143-7149 ◽  
Author(s):  
Christopher T. Jones ◽  
Lixin Ma ◽  
John W. Burgner ◽  
Teresa D. Groesch ◽  
Carol B. Post ◽  
...  

ABSTRACT The capsid proteins of two flaviviruses, yellow fever virus and dengue virus, were expressed in Escherichia coli and purified to near homogeneity suitable for biochemical characterization and structure determination by nuclear magnetic resonance. The oligomeric properties of the capsid protein in solution were investigated. In the absence of nucleic acid, both proteins were predominately dimeric in solution. Further analysis of both proteins with far-UV circular dichroism spectroscopy indicated that they were largely alpha-helical. The secondary structure elements of the dengue virus capsid were determined by chemical shift indexing of the sequence-specific backbone resonance assignments. The dengue virus capsid protein devoid of its C-terminal signal sequence was found to be composed of four alpha helices. The longest alpha helix, 20 residues, is located at the C terminus and has an amphipathic character. In contrast, the N terminus was found to be unstructured and could be removed without disrupting the structural integrity of the protein.


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