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PMID: 2402881 Published · ppublish English Journal Article

RNA pseudoknots: translational frameshifting and readthrough on viral RNAs.

Virus genes ·Vol. 4 ·No. 2 ·1990-07-00 ·Pages 121-36

ten Dam EB, Pleij CW, Bosch L

Abstract

Ribosomal frameshifting on retroviral RNAs has been proposed to be mediated by slippage of two adjacent tRNAs into the -1 direction at a specific heptanucleotide sequence. Here we report a computer-aided analysis of the structure around the established or putative frameshift sites in a number of retroviral, coronaviral, toroviral, and luteoviral RNAs and two dsRNA yeast viruses. In almost all cases a stable hairpin was predicted four to nine nucleotides downstream of the shifty heptanucleotide. More than half of the resulting hairpin loops give rise to potential pseudoknotting with sequences downstream of this hairpin. Especially in the case of the shifty heptanucleotides U UUA AAC and G GGA AAC, stable downstream pseudoknots are present. Indications were also found for the presence of pseudoknots downstream of amber stop condons at readthrough sites in some retroviral RNAs.

MeSH Terms
Base Sequence Codon Electronic Data Processing Molecular Sequence Data Mutation Nucleic Acid Conformation Protein Biosynthesis RNA, Viral/biosynthesis Retroviridae/genetics Suppression, Genetic
Chemicals
Codon RNA, Viral
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
ten Dam E B
Department of Biochemistry, University of Leiden, The Netherlands.
Pleij C W
Bosch L
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Article Info
Journal
Virus genes
Abbr.
Virus Genes
ISSN
0920-8569
DOI
10.1007/BF00678404
Published
1990-07-00
Pages
121-36
Language
English
Region
United States
NLM ID
8803967
PMCID
PMC7089070
Subset
IM
External Links
PubMed source DOI: 10.1007/BF00678404 PMC Full Text View journal details
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