Role of a conserved pseudouridine in U2 snRNA on the structural and electrostatic features of the spliceosomal pre-mRNA branch site

Greenbaum, Nancy L.

doi:10.1007/b106846

Cited by 1 publication

(1 citation statement)

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“…A dynamic equilibrium of a nonfunctional conformation, in which the adenosine 24 is stacked within a helix, and a functional extrahelical conformation of the same adenosine is thought to occur in the unmodified snRNA. The pseudouridine lowers the free Gibbs energy enough to shift the equilibrium towards the functional extrahelical conformation ( 113 , 114 ). Ribosomal RNA, especially in eukaryotes, contains many modified bases, although its large size depresses the overall ratio to unmodified bases.…”

Section: Introductionmentioning

confidence: 99%

Post-transcriptional nucleotide modification and alternative folding of RNA

Helm

2006

Nucleic Acids Research

340

234

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Alternative foldings are an inherent property of RNA and a ubiquitous problem in scientific investigations. To a living organism, alternative foldings can be a blessing or a problem, and so nature has found both, ways to harness this property and ways to avoid the drawbacks. A simple and effective method employed by nature to avoid unwanted folding is the modulation of conformation space through post-transcriptional base modification. Modified nucleotides occur in almost all classes of natural RNAs in great chemical diversity. There are about 100 different base modifications known, which may perform a plethora of functions. The presumably most ancient and simple nucleotide modifications, such as methylations and uridine isomerization, are able to perform structural tasks on the most basic level, namely by blocking or reinforcing single base-pairs or even single hydrogen bonds in RNA. In this paper, functional, genomic and structural evidence on cases of folding space alteration by post-transcriptional modifications in native RNA are reviewed.

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Section: Introductionmentioning

confidence: 99%