RNA kink-turns are highly anisotropic with respect to lateral displacement of the flanking stems

Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F68081707%3A_____%2F22%3A00555925" target="_blank" >RIV/68081707:_____/22:00555925 - isvavai.cz</a>
Alternative codes found
RIV/60461373:22310/22:43925550 RIV/65269705:_____/22:00076094 RIV/00216224:14740/22:00126464
Result on the web
<a href="https://www.sciencedirect.com/science/article/abs/pii/S0006349522000753?via%3Dihub" target="_blank" >https://www.sciencedirect.com/science/article/abs/pii/S0006349522000753?via%3Dihub</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1016/j.bpj.2022.01.025" target="_blank" >10.1016/j.bpj.2022.01.025</a>

Result language
angličtina
Original language name
RNA kink-turns are highly anisotropic with respect to lateral displacement of the flanking stems
Original language description
Kink-turns are highly bent internal loop motifs commonly found in the ribosome and other RNA complexes. They frequently act as binding sites for proteins and mediate tertiary interactions in larger RNA structures. Kink-turns have been a topic of intense research, but their elastic properties in the folded state are still poorly understood. Here we use extensive all-atom molecular dynamics simulations to parameterize a model of kink-turn in which the two flanking helical stems are represented by effective rigid bodies. Time series of the full set of six interhelical coordinates enable us to extract minimum energy shapes and harmonic stiffness constants for kink-turns from different RNA functional classes. The analysis suggests that kink-turns exhibit isotropic bending stiffness but are highly anisotropic with respect to lateral displacement of the stems. The most flexible lateral displacement mode is perpendicular to the plane of the static bend. These results may help understand the structural adaptation and mechanical signal transmission by kink-turns in complex natural and artificial RNA structures.
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
10610 - Biophysics

Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Publication year
2022
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

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