Prediction of GPCR-G protein coupling specificity using features of sequences and biological functions.
Understanding the coupling specificity between G protein-coupled receptors (GPCRs) and specific classes of G proteins is important for further elucidation of receptor functions within a cell. Increasing information on GPCR sequences and the G protein family would facilitate prediction of the coupling properties of GPCRs. In this study, we describe a novel approach for predicting the coupling specificity between GPCRs and G proteins. This method uses not only GPCR sequences but also the functional knowledge generated by natural language processing, and can achieve 92.2% prediction accuracy by using the C4.5 algorithm. Furthermore, rules related to GPCR-G protein coupling are generated. The combination of sequence analysis and text mining improves the prediction accuracy for GPCR-G protein coupling specificity, and also provides clues for understanding GPCR signaling.
Ono
Toshihide
T
Laboratory of Bioinformatics, Otsuka Pharmaceutical Co., Ltd., Kawauchi-cho, Tokushima 771-0192, Japan. ono@otsuka.gr.jp
Hishigaki
Haretsugu
H
D019204:GTP-Binding Proteins / Q000378:metabolism*; D008962:Models, Theoretical; D011485:Protein Binding; D043562:Receptors, G-Protein-Coupled / Q000378:metabolism*; D020539:Sequence Analysis, Protein
D043562:Receptors, G-Protein-Coupled; D019204:GTP-Binding Proteins