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PMID: 1710343 Published · ppublish English Comparative Study Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, P.H.S.

A comparison of optimal and suboptimal RNA secondary structures predicted by free energy minimization with structures determined by phylogenetic comparison.

Nucleic acids research ·Vol. 19 ·No. 10 ·1991-05-25 ·Pages 2707-14

Zuker M, Jaeger JA, Turner DH

Abstract

This article describes the latest version of an RNA folding algorithm that predicts both optimal and suboptimal solutions based on free energy minimization. A number of RNA's with known structures deduced from comparative sequence analysis are folded to test program performance. The group of solutions obtained for each molecule is analysed to determine how many of the known helixes occur in the optimal solution and in the best suboptimal solution. In most cases, a structure about 80% correct is found with a free energy within 2% of the predicted lowest free energy structure.

MeSH Terms
Algorithms Base Sequence Evaluation Studies as Topic Molecular Sequence Data Nucleic Acid Conformation Phylogeny RNA/chemistry RNA, Ribosomal, 16S/chemistry Thermodynamics
Chemicals
RNA, Ribosomal, 16S RNA
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Zuker M
Institute for Biological Sciences, National Research Council of Canada, Ottawa, Ontario.
Jaeger J A
Turner D H
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
0305-1048
DOI
10.1093/nar/19.10.2707
Published
1991-05-25
Pages
2707-14
Language
English
Region
England
NLM ID
0411011
PMCID
PMC328190
Subset
IM
Grants
NIGMS NIH HHS · GM22939 · United States
External Links
PubMed source DOI: 10.1093/nar/19.10.2707 PMC Full Text View journal details
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