Predicting the Functional Types of Singleplex and Multiplex Eukaryotic Membrane Proteins via Different Models of Chou’s Pseudo Amino Acid Compositions

Abstract

Given a membrane protein sequence, how can we identify its type, particularly when a query protein may have the multiplex character, i.e., simultaneously exist at two or more different types. However, most of the existing predictors or methods can only be used to deal with the single-type or "singleplex" membrane proteins. Actually, multiple-type or "multiplex" membrane proteins should not be ignored because they usually posses some unique biological functions worthy of our special notice. In this study, three different models were developed, which have the ability to deal with the systems containing both singleplex and multiplex membrane proteins. The overall success rate thus obtained was 0.6440, indicating that the study may become a very useful high-throughput tool in identifying the functional types of membrane proteins.