Synthical logo
Your space
From chemRxiv

Unveiling the unusual i-motif-derived architecture of a DNA aptamer exhibiting high affinity for influenza A virus

Non-canonical nucleic acid structures have been shown the capacity to selectively interact with proteins, thereby exerting influence over various intracellular processes. Among these structures, both natural and artificial G-quadruplexes have been extensively studied in relation to their structure-activity relationships. In contrast, the role of i-motifs remains incompletely evaluated. In this study the artificial aptamer BV42 possessing a high affinity for hemagglutinin of influenza A virus was proven to contain the i-motif structure even at neutral pH. However, conformational heterogeneity of BV42 poses challenges for in-depth structural investigations. Using molecular dynamics simulations and introducing chemical modifications for molecular probing, a putative binding site in the aptamer was suggested. These findings have enabled us to redesign the aptamer, eliminating the conformational diversity associated with the i-motif while preserving its binding affinity. Subsequent validation through NMR spectroscopy confirms the presence of the i-motif/duplex junction with the 3-cytosine loop located near the junction. This study elucidates a distinctive instance of an unusual nucleic acid architecture involved in molecular recognition, thereby shedding light on the structural peculiarities of functional i-motifs.
Published on April 2, 2024
Copy BibTeX
Loading PDF…
There is no AI-powered summary yet, because we do not have a budget to generate summaries for all articles.
1. Buy subscription
We will thank you for helping thousands of people to save their time at the top of the generated summary.
If you buy our subscription, you will be able to summarize multiple articles.
Pay $undefined
≈10 summaries
Pay $undefined
≈60 summaries
2. Share on socials
If this article gets to top-5 in trends, we'll summarize it for free.
Copy link