Loop entropy assists tertiary order: loopy stabilization of stacking motifs (Q400961)
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scientific article; zbMATH DE number 6334281
| Language | Label | Description | Also known as |
|---|---|---|---|
| English | Loop entropy assists tertiary order: loopy stabilization of stacking motifs |
scientific article; zbMATH DE number 6334281 |
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Loop entropy assists tertiary order: loopy stabilization of stacking motifs (English)
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26 August 2014
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Summary: The free energy of an RNA fold is a combination of favorable base pairing and stacking interactions competing with entropic costs of forming loops. Here we show how loop entropy, surprisingly, can promote tertiary order. A general formula for the free energy of forming multibranch and other RNA loops is derived with a polymer-physics based theory. We also derive a formula for the free energy of coaxial stacking in the context of a loop. Simulations support the analytic formulas. The effects of stacking of unpaired bases are also studied with simulations.
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RNA
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coaxial stacking
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tertiary structure
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secondary structure
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multibranch loops
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hairpin loops
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polymer simulations
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0.6696257591247559
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0.6651830077171326
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0.6561290621757507
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0.6458976864814758
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