Vysaul B. Nyirongo

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BACKGROUND Matching functional sites is a key problem for the understanding of protein function and evolution. The commonly used graph theoretic approach, and other related approaches, require adjustment of a matching distance threshold a priori according to the noise in atomic positions. This is difficult to pre-determine when matching sites related by(More)
We propose a simple procedure for generating virtual protein C(alpha) traces. One of the key ingredients of our method, to build a three-dimensional structure from a random sequence of amino acids, is to work directly on torsional angles of the chain which we sample from a von Mises distribution. With simple modeling of the hydrophobic effect in protein(More)
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