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bioRxiv · 10.1101/2020.04.07.029520

PremPRI: Predicting the Effects of Single Mutations on Protein-RNA Interactions

Zhang, N.·Lu, H.·Chen, Y.·Zhu, Z.·Yang, Q.·Wang, S.·Li, M.
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Abstract

Protein-RNA interactions are crucial for many cellular processes, such as protein synthesis and regulation of gene expression. Missense mutations that alter protein-RNA interaction may contribute to the pathogenesis of many diseases. Here we introduce a new computational method PremPRI, which predicts the effects of single mutations occurring in RNA binding proteins on the protein-RNA interactions by calculating the binding affinity changes quantitatively. The multiple linear regression scoring function of PremPRI is composed of 11 sequence- and structure-based features, and is parameterized on 248 mutations from 50 protein-RNA complexes. Our model shows a good agreement between calculated and experimental values of binding affinity changes with Pearson correlation coefficient of 0.72 and the corresponding root-mean-square error of 0.76 kcal mol-1, outperforming three other available methods. PremPRI can be used for finding functionally important variants, understanding the molecular mechanisms, and designing new protein-RNA interaction inhibitors. PremPRI is freely available at http://lilab.jysw.suda.edu.cn/research/PremPRI/.

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Zhang, N., Lu, H., Chen, Y., Zhu, Z., Yang, Q., Wang, S., Li, M.. 2020-04-08. PremPRI: Predicting the Effects of Single Mutations on Protein-RNA Interactions. https://doi.org/10.1101/2020.04.07.029520

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