About: An atypical RNA pseudoknot stimulator and an upstream attenuation signal for −1 ribosomal frameshifting of SARS coronavirus

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About: An atypical RNA pseudoknot stimulator and an upstream attenuation signal for −1 ribosomal frameshifting of SARS coronavirus 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
has title	An atypical RNA pseudoknot stimulator and an upstream attenuation signal for −1 ribosomal frameshifting of SARS coronavirus
Creator	Tsai, Ching-Hsiu Su, Mei-Chi Chang, Kung-Yao Chang, Chung-Te Chu, Chiu-Hui
Source	Medline; PMC
abstract	The −1 ribosomal frameshifting requires the existence of an in cis RNA slippery sequence and is promoted by a downstream stimulator RNA. An atypical RNA pseudoknot with an extra stem formed by complementary sequences within loop 2 of an H-type pseudoknot is characterized in the severe acute respiratory syndrome coronavirus (SARS CoV) genome. This pseudoknot can serve as an efficient stimulator for −1 frameshifting in vitro. Mutational analysis of the extra stem suggests frameshift efficiency can be modulated via manipulation of the secondary structure within the loop 2 of an infectious bronchitis virus-type pseudoknot. More importantly, an upstream RNA sequence separated by a linker 5′ to the slippery site is also identified to be capable of modulating the −1 frameshift efficiency. RNA sequence containing this attenuation element can downregulate −1 frameshifting promoted by an atypical pseudoknot of SARS CoV and two other pseudoknot stimulators. Furthermore, frameshift efficiency can be reduced to half in the presence of the attenuation signal in vivo. Therefore, this in cis RNA attenuator represents a novel negative determinant of general importance for the regulation of −1 frameshift efficiency, and is thus a potential antiviral target.
has issue date	2005-07-29(xsd:dateTime)
bibo:doi	10.1093/nar/gki731
bibo:pmid	16055920
has license	no-cc
sha1sum (hex)	308a157fe5e9a630ded41e9d708dd50df3b6149b
schema:url	https://doi.org/10.1093/nar/gki731
resource representing a document's title	An atypical RNA pseudoknot stimulator and an upstream attenuation signal for −1 ribosomal frameshifting of SARS coronavirus
has PubMed Central identifier	PMC1182165
has PubMed identifier	16055920
schema:publication	Nucleic Acids Res
resource representing a document's body	covid:308a157fe5e9a630ded41e9d708dd50df3b6149b#body_text
is schema:about of	named entity 'target' named entity 'manipulation' named entity 'attenuator' named entity 'pseudoknot' named entity 'More' named entity 'existence' named entity 'RNA' named entity 'atypical' named entity 'attenuation' named entity 'stimulator' covid:arg/308a157fe5e9a630ded41e9d708dd50df3b6149b named entity 'serve' named entity 'pseudoknot' named entity 'infectious bronchitis' named entity 'cis' named entity 'signal' named entity 'potential' named entity 'modulating' named entity 'negative' named entity 'antiviral' named entity 'frameshifting' named entity 'frameshift' named entity 'slippery sequence' named entity 'frameshift' named entity 'RNA sequence' named entity 'pseudoknot' named entity 'downregulate' named entity 'ribosomal frameshifting' named entity 'frameshifting' named entity 'frameshift' named entity 'ligation' named entity 'transmissible gastroenteritis virus' named entity 'frameshift' named entity 'upstream and downstream' named entity 'viral RNA' named entity 'pseudoknot' named entity 'denatured' named entity 'frameshifting' named entity '0.01' named entity 'wild-type' named entity 'pseudoknot' named entity 'wild-type' named entity 'RNA element' named entity 'RNase' named entity 'cis' named entity 'ribosome' named entity 'transcription' named entity 'single-stranded' named entity '293T' named entity 'vector' named entity 'Promega' named entity 'luciferase' named entity 'SARS' named entity 'base pairing' named entity 'Stratagene' named entity 'frameshifting' named entity 'IBV' named entity 'frameshift' named entity 'IBV' named entity 'tRNAs' named entity 'cDNA' named entity 'RNA pseudoknot' named entity 'helical' named entity 'pseudoknot' named entity '293T cells' named entity 'wild-type' named entity 'RNA' named entity 'base pair' named entity 'RNA sequencing' named entity 'protein products' named entity 'frameshift' named entity 'pseudoknot' named entity 'pseudoknot' named entity 'RNA sequences' named entity 'Promega' named entity 'stem-loop structure' named entity 'gene'

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