Motivation: To test whether protein folding constraints and secondary structure sequence preferences significantly reduce the space of amino acid words in proteins, we compared th...
Motivation: Proteins of all kinds can self-assemble into highly ordered β-sheet aggregates known as amyloid fibrils, important both biologically and clinically. However, the spe...
Recognition of a protein’s fold provides valuable information about its function. While many sequence-based homology prediction methods exist, an important challenge remains: tw...
Background: Classification of protein sequences is a central problem in computational biology. Currently, among computational methods discriminative kernel-based approaches provid...
Background: We performed an exhaustive search for local structural similarities in an ensemble of non-redundant protein functional sites. With the purpose of finding new examples ...