Computational Prediction of RNA-Binding Proteins and Binding Sites.

Authors

Jingna Si, Jing Cui, Jin Cheng, Rongling Wu

Published in

International journal of molecular sciences. Volume 16. Issue 11. Pages 26303-17. Nov 03, 2015. Epub Nov 03, 2015.

Abstract

Proteins and RNA interaction have vital roles in many cellular processes such as protein synthesis, sequence encoding, RNA transfer, and gene regulation at the transcriptional and post-transcriptional levels. Approximately 6%-8% of all proteins are RNA-binding proteins (RBPs). Distinguishing these RBPs or their binding residues is a major aim of structural biology. Previously, a number of experimental methods were developed for the determination of protein-RNA interactions. However, these experimental methods are expensive, time-consuming, and labor-intensive. Alternatively, researchers have developed many computational approaches to predict RBPs and protein-RNA binding sites, by combining various machine learning methods and abundant sequence and/or structural features. There are three kinds of computational approaches, which are prediction from protein sequence, prediction from protein structure, and protein-RNA docking. In this paper, we review all existing studies of predictions of RNA-binding sites and RBPs and complexes, including data sets used in different approaches, sequence and structural features used in several predictors, prediction method classifications, performance comparisons, evaluation methods, and future directions.

PMID:
26540053
Bibliographic data and abstract were imported from PubMed on 08 Nov 2025.

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