Dengue virus 2 capsid protein chaperones strand displacement without altering the capsid-coding region hairpin element's structural functionality
Yong, X. E.; Raghuvamsi, P. V.; Anand, G. S.; Wohland, T.; Sharma, K. K.
Show abstract
By virtue of its chaperone activity, the capsid protein of dengue virus strain 2 (DENV2C) promotes nucleic acid structural rearrangements. However, the role of DENV2C during the interaction of RNA elements involved in stabilizing the 5-3 panhandle structure of DENV RNA is still unclear. Therefore, we determined how DENV2C affects structural functionality of the capsid-coding region hairpin element (cHP) during RNA rearrangement of the 9-nt conserved sequence (5CS) to its complementary 3CS counterpart. The cHP element has two distinct functions: a role in translation start codon selection and a role in RNA synthesis. Our results showed that the cHP hairpin impedes annealing between the 5CS and the 3CS elements. Although DENV2C does not modulate structural functionality of the cHP hairpin, it accelerates annealing and specifically promotes strand displacement of 3CS during 5-3 panhandle formation. Furthermore, DENV2C exerts its chaperone activity by favoring one of the active conformations of the cHP element. Based on our results, we propose mechanisms for annealing and strand displacement involving the cHP element. Thus, our results provide mechanistic insights on how DENV2C regulates RNA synthesis by modulating essential RNA elements in the capsid-coding region, that in turn allow for DENV replication.
Matching journals
The top 6 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Double-stranded RNA bending by AU-tract sequences 95%
- Nanopore sequencing for N1-methylpseudouridine in RNA reveals sequence-dependent discrimination of the modified nucleotide triphosphate during transcription 94%
- Mechanistic insights into the activity of SARS-CoV-2 RNA polymerase inhibitors using single-molecule FRET 94%
Similar papers in this journal
Similar papers in this journal
- A single mutation attenuates both the transcription termination and RNA-dependent RNA polymerase activity of T7 RNA polymerase 94%
- Beyond Plug and Pray: Context Sensitivity and in silico Design of Artificial Neomycin Riboswitches 93%
- Insights into the secondary and tertiary structure of the Bovine Viral Diarrhea Virus Internal Ribosome Entry Site 92%
Similar papers in this journal
Similar papers in this journal
- Affinity tag free purification of SARS-Cov-2 N protein and its crystal structure in complex with ssDNA 91%
- Integrating Conformational Dynamics and Perturbation-Based Network Modeling for Mutational Profiling of Binding and Allostery in the SARS-CoV-2 Spike Variant Complexes with Antibodies: Balancing Local and Global Determinants of Mutational Escape Mechanisms 90%
- A Ribosome Interaction Surface Sensitive to mRNA GCN Periodicity 90%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.