About: The Highly Conserved Codon following the Slippery Sequence Supports −1 Frameshift Efficiency at the HIV-1 Frameshift Site

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About: The Highly Conserved Codon following the Slippery Sequence Supports −1 Frameshift Efficiency at the HIV-1 Frameshift Site Goto Sponge NotDistinct Permalink

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

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	The Highly Conserved Codon following the Slippery Sequence Supports −1 Frameshift Efficiency at the HIV-1 Frameshift Site
Creator	Graves, Ryan Cardno, Tony Crowe-Mcauliffe, Caillan Mathew, Suneeth Mckinney, Cushla Poole, Elizabeth Tate, Warren
Source	PMC
abstract	HIV-1 utilises −1 programmed ribosomal frameshifting to translate structural and enzymatic domains in a defined proportion required for replication. A slippery sequence, U UUU UUA, and a stem-loop are well-defined RNA features modulating −1 frameshifting in HIV-1. The GGG glycine codon immediately following the slippery sequence (the ‘intercodon’) contributes structurally to the start of the stem-loop but has no defined role in current models of the frameshift mechanism, as slippage is inferred to occur before the intercodon has reached the ribosomal decoding site. This GGG codon is highly conserved in natural isolates of HIV. When the natural intercodon was replaced with a stop codon two different decoding molecules—eRF1 protein or a cognate suppressor tRNA—were able to access and decode the intercodon prior to −1 frameshifting. This implies significant slippage occurs when the intercodon is in the (perhaps distorted) ribosomal A site. We accommodate the influence of the intercodon in a model of frame maintenance versus frameshifting in HIV-1.
has issue date	2015-03-25(xsd:dateTime)
bibo:doi	10.1371/journal.pone.0122176
bibo:pmid	25807539
has license	cc-by
sha1sum (hex)	b70653608d4d8838aaf1dae4e710fa03a858df43
schema:url	https://doi.org/10.1371/journal.pone.0122176
resource representing a document's title	The Highly Conserved Codon following the Slippery Sequence Supports −1 Frameshift Efficiency at the HIV-1 Frameshift Site
has PubMed Central identifier	PMC4373837
has PubMed identifier	25807539
schema:publication	PLoS One
resource representing a document's body	covid:b70653608d4d8838aaf1dae4e710fa03a858df43#body_text
is schema:about of	named entity 'models' named entity 'features' named entity 'EFFICIENCY' named entity 'CURRENT' named entity 'ISOLATES' named entity 'MOLECULES' named entity 'REPLICATION' named entity 'HIV-1' named entity 'CONSERVED' named entity 'START' named entity 'ENZYMATIC' named entity 'UUU' named entity 'MODEL OF' named entity 'INFERRED' named entity 'RIBOSOMAL' named entity 'GGG' named entity 'FOLLOWING' named entity 'REQUIRED' named entity 'DECODING' named entity 'FEATURES' named entity 'STEM-LOOP' named entity 'ACCESS' named entity 'UUA' named entity 'DEFINED' named entity 'ERF1' named entity 'BUT' named entity 'SIGNIFICANT' named entity 'HIV' named entity 'PROPORTION' named entity 'SEQUENCE' named entity 'OCCUR' named entity 'HIGHLY' named entity 'HIV-1' named entity 'CONSERVED' named entity 'FRAMESHIFT' named entity 'RNA' named entity 'SEQUENCE' named entity 'FOLLOWING' named entity 'SITE' named entity 'CODON' named entity 'MODULATING' named entity 'PROTEIN ' named entity 'SUPPRESSOR TRNA' named entity 'ROLE' named entity 'MODELS' named entity 'DISTORTED' named entity 'INFLUENCE' named entity 'STRUCTURAL' named entity 'CODON' named entity 'MAINTENANCE' named entity 'TO TRANSLATE' named entity 'IMMEDIATELY' named entity 'FRAME' named entity 'DIFFERENT' named entity 'REPLACED' named entity 'GLYCINE' named entity 'PRIOR TO' named entity '921' named entity 'WELL-DEFINED' named entity 'STOP CODON' named entity '921' named entity 'HIGHLY' named entity 'SITE' named entity 'FRAMESHIFT' named entity 'NATURAL' named entity 'MECHANISM' named entity 'access' named entity 'structurally' named entity 'structural' named entity 'RNA' named entity 'GGG' named entity 'highly' named entity 'distorted' named entity 'defined' named entity 'slippery sequence'

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