Role of Inosine-Uracil Base Pairs in the Canonical RNA Duplexes

Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14740%2F18%3A00101215" target="_blank" >RIV/00216224:14740/18:00101215 - isvavai.cz</a>
Result on the web
<a href="http://dx.doi.org/10.3390/genes9070324" target="_blank" >http://dx.doi.org/10.3390/genes9070324</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.3390/genes9070324" target="_blank" >10.3390/genes9070324</a>

Result language
angličtina
Original language name
Role of Inosine-Uracil Base Pairs in the Canonical RNA Duplexes
Original language description
Adenosine to inosine (A-I) editing is the most common modification of double-stranded RNA (dsRNA). This change is mediated by adenosine deaminases acting on RNA (ADARs) enzymes with a preference of U>A>C>G for 5' neighbor and G>C=A>U or G>C>U=A for 3' neighbor. A-I editing occurs most frequently in the non-coding regions containing repetitive elements such as ALUs. It leads to disruption of RNA duplex structure, which prevents induction of innate immune response. We employed standard and biased molecular dynamics (MD) simulations to analyze the behavior of RNA duplexes with single and tandem inosine-uracil (I-U) base pairs in different sequence context. Our analysis showed that the I-U pairs induce changes in base pair and base pair step parameters and have different dynamics when compared with standard canonical base pairs. In particular, the first I-U pair from tandem I-U/I-U systems exhibited increased dynamics depending on its neighboring 5' base. We discovered that UII sequence, which is frequently edited, has lower flexibility compared with other sequences (AII, GII, CII), hence it only modestly disrupts dsRNA. This might indicate that the UAA motifs in ALUs do not have to be sufficiently effective in preventing immune signaling.
Czech name
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Czech description
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Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
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OECD FORD branch
30101 - Human genetics

Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year
2018
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

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