Affiliation:
1. Department of Chemistry, Saint Louis University , Saint Louis , MO 63103 , USA
Abstract
Abstract
One of the current methods for predicting RNA tertiary structure is fragment-based homology, which predicts tertiary structure from secondary structure. For a successful prediction, this method requires a library of the tertiary structures of small motifs clipped from previously solved RNA 3D structures. Because of the limited number of available tertiary structures, it is not practical to find structures for all sequences of all motifs. Identifying sequence families for motifs can fill the gaps because all sequences within a family are expected to have similar structural features. Currently, a collection of well-characterized sequence families has been identified for tetraloops. Because of their prevalence and biological functions, pentaloop structures should also be well-characterized. In this study, 10 pentaloop sequence families are identified. For each family, the common and distinguishing structural features are highlighted. These sequence families can be used to predict the tertiary structure of pentaloop sequences for which a solved structure is not available.
Funder
National Institutes of Health
Publisher
Oxford University Press (OUP)
Subject
Applied Mathematics,Computer Science Applications,Genetics,Molecular Biology,Structural Biology
Cited by
1 articles.
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1. NMR analysis of a loop-bulge structure of UUCGA pentaloop;Biochemical and Biophysical Research Communications;2024-01