About: Coordination among tertiary base pairs results in an efficient frameshift-stimulating RNA pseudoknot

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About: Coordination among tertiary base pairs results in an efficient frameshift-stimulating RNA pseudoknot Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	Coordination among tertiary base pairs results in an efficient frameshift-stimulating RNA pseudoknot
Creator	Chang, Kai-Chun Chang, Kung-Yao Wen, Jin-Der Chang, Cheng-Fu Chen, Yi-Lan Chen, Yu-Ting Hsu, Chiung-Fang Hu, Hao-Teng Lin, You-Hsin
source	PMC
abstract	Frameshifting is an essential process that regulates protein synthesis in many viruses. The ribosome may slip backward when encountering a frameshift motif on the messenger RNA, which usually contains a pseudoknot structure involving tertiary base pair interactions. Due to the lack of detailed molecular explanations, previous studies investigating which features of the pseudoknot are important to stimulate frameshifting have presented diverse conclusions. Here we constructed a bimolecular pseudoknot to dissect the interior tertiary base pairs and used single-molecule approaches to assess the structure targeted by ribosomes. We found that the first ribosome target stem was resistant to unwinding when the neighboring loop was confined along the stem; such constrained conformation was dependent on the presence of consecutive adenosines in this loop. Mutations that disrupted the distal base triples abolished all remaining tertiary base pairs. Changes in frameshifting efficiency correlated with the stem unwinding resistance. Our results demonstrate that various tertiary base pairs are coordinated inside a highly efficient frameshift-stimulating RNA pseudoknot and suggest a mechanism by which mechanical resistance of the pseudoknot may persistently act on translocating ribosomes.
has issue date	2017-06-02(xsd:dateTime)
bibo:doi	10.1093/nar/gkx134
bibo:pmid	28334864
has license	cc-by-nc
sha1sum (hex)	81a11c6680ce725535704809655d945cd1d4a088
schema:url	https://doi.org/10.1093/nar/gkx134
resource representing a document's title	Coordination among tertiary base pairs results in an efficient frameshift-stimulating RNA pseudoknot
has PubMed Central identifier	PMC5449628
has PubMed identifier	28334864
schema:publication	Nucleic Acids Res
resource representing a document's body	covid:81a11c6680ce725535704809655d945cd1d4a088#body_text
is schema:about of	named entity 'TERTIARY' named entity 'APPROACHES' named entity 'RNA' named entity 'SUGGEST' named entity 'DISTAL' named entity 'PRESENTED' named entity 'ACT' named entity 'STEM' named entity 'PRESENCE OF' named entity 'EXPLANATIONS' named entity 'STIMULATE' named entity 'CONSTRUCTED' named entity 'MECHANISM' named entity 'SINGLE' named entity 'VARIOUS' named entity 'FEATURES' named entity 'CONFORMATION' named entity 'BASE PAIR' named entity 'TERTIARY' named entity 'SLIP' named entity 'FOUND' named entity 'slip' named entity 'interior' named entity 'Due' named entity 'detailed' named entity 'bimolecular' named entity 'STIMULATING' named entity 'FRAMESHIFT' named entity 'RNA' named entity 'MOLECULAR' named entity 'REMAINING' named entity 'DISSECT' named entity 'INVESTIGATING' named entity 'ABOLISHED' named entity 'COORDINATION' named entity 'PSEUDOKNOT' named entity 'LACK' named entity 'BACKWARD' named entity 'PREVIOUS' named entity 'INVOLVING' named entity 'DISRUPTED' named entity 'HAVE' named entity 'USED' named entity 'DIVERSE' named entity 'RESULTS' named entity 'PROCESS' named entity 'BASE PAIRS' named entity 'EFFICIENT' named entity 'BASE PAIRS' named entity 'DETAILED' named entity 'NEIGHBORING' named entity 'TARGET' named entity 'IMPORTANT' named entity 'DUE TO' named entity 'RESISTANCE' named entity 'HERE' named entity 'MECHANICAL' named entity 'VIRUSES' named entity 'MOLECULE' named entity 'ADENOSINES' named entity 'CHANGES' named entity 'ESSENTIAL' named entity 'CORRELATED' named entity 'EFFICIENT' named entity 'CONSECUTIVE' named entity 'RIBOSOME' named entity 'BASE' named entity 'MUTATIONS' named entity 'MESSENGER RNA' named entity 'FRAMESHIFT' named entity 'STIMULATING' named entity 'INTERACTIONS' named entity 'RESULTS'

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