Systematic elicitation of sequence patterns associated with non-proline cis peptide bonds

Abstract

Non-proline cis peptide bonds have been quite underrated for many years, due to the limited amount of structural information available. There is now significant evidence that non-proline cis peptide bonds occur more frequently than previously thought, and that they are often located at or near important sites of the protein molecule. In this work, we employ a combinatorial pattern discovery algorithm in order to identify simple and specific amino acid patterns, associated with the occurrence of non-proline cis peptide bonds in proteins. The derived patterns after careful validation help in gaining insight into the factors that influence the formation of non-proline cis peptide bonds.