核糖核酸
生物
突变体
生物物理学
超分子化学
核酸结构
计算生物学
细胞生物学
生物化学
结晶学
基因
化学
晶体结构
作者
Alyssa C. Hill,Susan J. Schroeder
出处
期刊:RNA
日期:2017-01-09
卷期号:23 (4): 521-529
被引量:18
标识
DOI:10.1261/rna.059220.116
摘要
The thermodynamic stabilities of four natural prohead or packaging RNA (pRNA) three-way junction (3WJ) nanomotifs and seven phi29 pRNA 3WJ deletion mutant nanomotifs were investigated using UV optical melting on a three-component RNA system. Our data reveal that some pRNA 3WJs are more stable than the phi29 pRNA 3WJ. The stability of the 3WJ contributes to the unique self-assembly properties of pRNA. Thus, ultrastable pRNA 3WJ motifs suggest new scaffolds for pRNA-based nanotechnology. We present data demonstrating that pRNA 3WJs differentially respond to the presence of metal ions. A comparison of our data with free energies predicted by currently available RNA secondary structure prediction programs shows that these programs do not accurately predict multibranch loop stabilities. These results will expand the existing parameters used for RNA secondary structure prediction from sequence in order to better inform RNA structure–function hypotheses and guide the rational design of functional RNA supramolecular assemblies.
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