Prediction of cis/trans isomerization in proteins using PSI-BLAST profiles and secondary structure information.

ABSTRACT:

Background

The majority of peptide bonds in proteins are found to occur in the trans conformation. However, for proline residues, a considerable fraction of Prolyl peptide bonds adopt the cis form. Proline cis/trans isomerization is known to play a critical role in protein folding, splicing, cell signaling and transmembrane active transport. Accurate prediction of proline cis/trans isomerization in proteins would have many important applications towards the understanding of protein structure and function.

Results

In this paper, we propose a new approach to predict the proline cis/trans isomerization in proteins using support vector machine (SVM). The preliminary results indicated that using Radial Basis Function (RBF) kernels could lead to better prediction performance than

SUBMITTER: Song J 

PROVIDER: S-EPMC1450308 | biostudies-literature | 2006 Mar

REPOSITORIES: biostudies-literature