Prediction of GPCR-G protein coupling specificity using features of sequences and biological functions

Genomics Proteomics Bioinformatics. 2006 Nov;4(4):238-44. doi: 10.1016/S1672-0229(07)60004-7.

Abstract

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.

MeSH terms

  • GTP-Binding Proteins / metabolism*
  • Models, Theoretical*
  • Protein Binding
  • Receptors, G-Protein-Coupled / metabolism*
  • Sequence Analysis, Protein

Substances

  • Receptors, G-Protein-Coupled
  • GTP-Binding Proteins