Generating folded protein structures with a lattice chain growth algorithm

Abstract

The feasibility of using chain growth algorithm is discussed for computing the configurational properties of proteins and their lattice generation. This approach provides an alternative to folding algorithms. It is modified version of the Rosenbluth algorithm and the chain growth transition probability is a normalized Boltzmann factor. The algorithms ability to produce nativelike folds and its effectiveness for calculating protein thermodynamics. We use the chain growth algorithm to evaluate the ability of different energy functions to discern nativelike structures for a set of proteins.