Conserved tertiary structure elements in the 5' untranslated region of human enteroviruses and rhinoviruses
- PMID: 1333125
- PMCID: PMC7131026
- DOI: 10.1016/0042-6822(92)90261-m
Conserved tertiary structure elements in the 5' untranslated region of human enteroviruses and rhinoviruses
Abstract
A combination of comparative sequence analysis and thermodynamic methods reveals the conservation of tertiary structure elements in the 5' untranslated region (UTR) of human enteroviruses and rhinoviruses. The predicted common structural elements occur in the 3' end of a segment that is critical for internal ribosome binding, termed "ribosome landing pad" (RLP), of polioviruses. Base pairings between highly conserved 17-nucleotide (nt) and 21-nt sequences in the 5' UTR of human enteroviruses and rhinoviruses constitute a predicted pseudoknot that is significantly more stable than those that can be formed from a large set of randomly shuffled sequences. A conserved single-stranded polypyrimidine tract is located between two conserved tertiary elements. R. Nicholson, J. Pelletier, S.-Y. Le, and N. Sonenberg (1991, J. Virol. 65, 5886-5894) demonstrated that the point mutations of 3-nt UUU out of an essential 4-nt pyrimidine stretch sequence UUUC abolished translation. Structural analysis of the mutant sequence indicates that small point mutations within the short polypyrimidine sequence would destroy the tertiary interaction in the predicted, highly ordered structure. The proposed common tertiary structure can offer experimentalists a model upon which to extend the interpretations for currently available data. Based on these structural features possible base-pairing models between human enteroviruses and 18 S rRNA and between human rhinoviruses and 18 S rRNA are proposed. The proposed common structure implicates a biological function for these sequences in translational initiation.
Similar articles
-
Common structures of the 5' non-coding RNA in enteroviruses and rhinoviruses. Thermodynamical stability and statistical significance.J Mol Biol. 1990 Dec 5;216(3):729-41. doi: 10.1016/0022-2836(90)90395-3. J Mol Biol. 1990. PMID: 2175364
-
Unusual folding regions and ribosome landing pad within hepatitis C virus and pestivirus RNAs.Gene. 1995 Mar 10;154(2):137-43. doi: 10.1016/0378-1119(94)00859-q. Gene. 1995. PMID: 7890155
-
Comparative sequence analysis of the 5' noncoding region of the enteroviruses and rhinoviruses.Virology. 1988 Jul;165(1):42-50. doi: 10.1016/0042-6822(88)90656-3. Virology. 1988. PMID: 2838971
-
The structure-function relationship of the enterovirus 3'-UTR.Virus Res. 2009 Feb;139(2):209-16. doi: 10.1016/j.virusres.2008.07.014. Epub 2008 Aug 30. Virus Res. 2009. PMID: 18706945 Review.
-
Basepairing with 18S ribosomal RNA in internal initiation of translation.FEBS Lett. 1994 Oct 3;352(3):271-5. doi: 10.1016/0014-5793(94)00975-9. FEBS Lett. 1994. PMID: 7925985 Review.
Cited by
-
Identification of an essential region for internal initiation of translation in the aphthovirus internal ribosome entry site and implications for viral evolution.J Virol. 1996 Feb;70(2):992-8. doi: 10.1128/JVI.70.2.992-998.1996. J Virol. 1996. PMID: 8551640 Free PMC article.
-
Role of RNA structure motifs in IRES-dependent translation initiation of the coxsackievirus B3: new insights for developing live-attenuated strains for vaccines and gene therapy.Mol Biotechnol. 2013 Oct;55(2):179-202. doi: 10.1007/s12033-013-9674-4. Mol Biotechnol. 2013. PMID: 23881360 Review.
-
High-affinity interaction of hnRNP A1 with conserved RNA structural elements is required for translation and replication of enterovirus 71.RNA Biol. 2013 Jul;10(7):1136-45. doi: 10.4161/rna.25107. Epub 2013 May 22. RNA Biol. 2013. PMID: 23727900 Free PMC article.
-
Biased Mutation and Selection in RNA Viruses.Mol Biol Evol. 2021 Jan 23;38(2):575-588. doi: 10.1093/molbev/msaa247. Mol Biol Evol. 2021. PMID: 32986832 Free PMC article.
-
Location of the internal ribosome entry site in the 5' non-coding region of the immunoglobulin heavy-chain binding protein (BiP) mRNA: evidence for specific RNA-protein interactions.Nucleic Acids Res. 1997 Jul 15;25(14):2800-7. doi: 10.1093/nar/25.14.2800. Nucleic Acids Res. 1997. PMID: 9207027 Free PMC article.
References
-
- Borman A., Jackson R.J. Initiation of translation of human rhinovirus RNA: Mapping the internal ribosome entry site. Virology. 1992;188:685–696. - PubMed
-
- Bredenbeek P.J., Pachuk C.J., Noten A.F.H., Charite J., Luytjes W., Weiss S.R., Spaan W.J.M. The primary structure and expression of the second open reading frame of the polymerase gene of the coronavirus MHV-59: A highly conserved polymerase is expressed by an efficient ribosomal frameshifting mechanism. Nucleic Acids Res. 1990;18:1825–1832. - PMC - PubMed
Publication types
MeSH terms
Substances
Grants and funding
LinkOut - more resources
Full Text Sources
Research Materials