Protein secondary structure prediction with dihedral angles

We present DESTRUCT, a new method of protein secondary structure prediction, which achieves a three-state accuracy (Q(3)) of 79.4% in a cross-validated trial on a nonredundant set of 513 proteins. An iterative set of cascade-correlation neural networks is used to predict both secondary structure and psi dihedral angles, with predicted values enhancing the subsequent iteration. Predictive accuracies of 80.7% and 81.7% are achieved on the CASP4 and CASP5 targets, respectively. Our approach is significantly more accurate than other contemporary methods, due to feedback and a novel combination of structural representations. (c) 2005 Wiley-Liss, Inc.