About: A mechanical explanation of RNA pseudoknot function in programmed ribosomal frameshifting

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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	A mechanical explanation of RNA pseudoknot function in programmed ribosomal frameshifting
Creator	Brierley, Ian Namy, Olivier Gilbert, Robert Stuart, David Moran, Stephen
Source	Medline; PMC
abstract	The triplet-based genetic code requires that translating ribosomes maintain the reading frame of a messenger RNA faithfully to ensure correct protein synthesis(1). However, in programmed -1 ribosomal frameshifting(2), a specific subversion of frame maintenance takes place, wherein the ribosome is forced to shift one nucleotide backwards into an overlapping reading frame and to translate an entirely new sequence of amino acids. This process is indispensable in the replication of numerous viral pathogens, including HIV and the coronavirus associated with severe acute respiratory syndrome(3), and is also exploited in the expression of several cellular genes(4). Frameshifting is promoted by an mRNA signal composed of two essential elements: a heptanucleotide ‘slippery’ sequence(5) and an adjacent mRNA secondary structure, most often an mRNA pseudoknot(6). How these components operate together to manipulate the ribosome is unknown. Here we describe the observation of a ribosome–mRNA pseudoknot complex that is stalled in the process of -1 frameshifting. Cryoelectron microscopic imaging of purified mammalian 80S ribosomes from rabbit reticulocytes paused at a coronavirus pseudoknot reveals an intermediate of the frameshifting process. From this it can be seen how the pseudoknot interacts with the ribosome to block the mRNA entrance channel, compromising the translocation process and leading to a spring-like deformation of the P-site transfer RNA. In addition, we identify movements of the likely eukaryotic ribosomal helicase and confirm a direct interaction between the translocase eEF2 and the P-site tRNA. Together, the structural changes provide a mechanical explanation of how the pseudoknot manipulates the ribosome into a different reading frame. SUPPLEMENTARY INFORMATION: The online version of this article (doi:10.1038/nature04735) contains supplementary material, which is available to authorized users.
has issue date	2006-01-01(xsd:dateTime)
bibo:doi	10.1038/nature04735
bibo:pmid	16688178
has license	no-cc
sha1sum (hex)	3c853092bcaf24ce03d1689a1b3d568b90c74dcb
schema:url	https://doi.org/10.1038/nature04735
resource representing a document's title	A mechanical explanation of RNA pseudoknot function in programmed ribosomal frameshifting
has PubMed Central identifier	PMC7094908
has PubMed identifier	16688178
schema:publication	Nature
resource representing a document's body	covid:3c853092bcaf24ce03d1689a1b3d568b90c74dcb#body_text
is schema:about of	named entity 'eEF2' named entity 'translocation' named entity 'confirm' named entity 'interaction' named entity 'process' named entity 'channel' named entity 'subversion' named entity 'function' named entity 'TO TRANSLATE' named entity 'MAMMALIAN' named entity 'THESE' named entity 'MECHANICAL' named entity 'OVERLAPPING' named entity 'SEQUENCE' named entity 'SIGNAL' named entity 'NEW' named entity 'LIKE' named entity 'MICROSCOPIC' named entity 'TRANSLOCATION PROCESS' named entity 'REPLICATION' named entity 'UNKNOWN' named entity 'MAINTENANCE' named entity 'AMINO ACIDS' named entity 'COMPONENTS' named entity 'DIRECT INTERACTION' named entity 'BACKWARDS' named entity 'HERE' named entity 'COMPOSED OF' named entity 'EXPRESSION' named entity 'RIBOSOMAL' named entity 'ADJACENT' named entity 'ENTRANCE' named entity 'OPERATE' named entity 'SEEN' named entity 'ENSURE' named entity 'TRANSFER RNA' named entity 'EXPLANATION' named entity 'HIV' named entity 'MANIPULATE' named entity 'INCLUDING' named entity 'ESSENTIAL' named entity 'PLACE' named entity 'BLOCK' named entity 'FUNCTION' named entity 'RNA' named entity 'RIBOSOMAL' named entity 'MECHANICAL' named entity 'LEADING' named entity 'CHANGES' named entity 'SEVERE ACUTE RESPIRATORY SYNDROME' named entity 'NUMEROUS' named entity 'BASED' named entity 'OBSERVATION' named entity 'CORRECT' named entity 'PROCESS' named entity 'RETICULOCYTES' named entity 'DESCRIBE' named entity 'RIBOSOMES' named entity 'READING FRAME' named entity 'REVEALS' named entity 'HOW' named entity 'RABBIT' named entity 'MRNA' named entity 'FRAME' named entity 'PURIFIED' named entity 'TO SHIFT' named entity 'MOVEMENTS' named entity 'HELICASE' named entity 'DIFFERENT' named entity 'COMPLEX' named entity 'PAUSED' named entity 'PSEUDOKNOT' named entity 'LIKELY' named entity 'CELLULAR' named entity 'CHANNEL' named entity 'PSEUDOKNOT' named entity 'STALLED'

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