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Constraining ribosomal RNA conformational space.

Paola Favaretto·Arjun Bhutkar·Temple F Smith
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Abstract

Despite the potential for many possible secondary-structure conformations, the native sequence of ribosomal RNA (rRNA) is able to find the correct and universally conserved core fold. This study reports a computational analysis investigating two mechanisms that appear to constrain rRNA secondary-structure conformational space: ribosomal proteins and rRNA sequence composition. The analysis was carried out by using rRNA-ribosomal protein interaction data for the Escherichia coli 16S rRNA and free energy minimization software for secondary-structure prediction. The results indicate that selection pressures on rRNA sequence composition and ribosomal protein-rRNA interaction play a key role in constraining the rRNA secondary structure to a single stable form.

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Base PairingComputational BiologyEscherichia coliNucleic Acid ConformationRNA, BacterialRNA, Ribosomal, 16SRibosomal ProteinsSequence Analysis, RNAJournal ArticleResearch Support, Non-U.S. Gov'tResearch Support, U.S. Gov't, Non-P.H.S.

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Paola Favaretto, Arjun Bhutkar, Temple F Smith. 2005-09-09. Constraining ribosomal RNA conformational space.. https://doi.org/10.1093/nar%2Fgki805

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