Mining Residue Contacts in Proteins Using Local Structure Predictions

Authors:
M. J. Zaki;Shan Jin;C. Bystroff
Affiliations:
-;-;-
Venue:
BIBE '00 Proceedings of the 1st IEEE International Symposium on Bioinformatics and Biomedical Engineering
Year:
2000

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Abstract

In this paper, we develop data mining techniques to predict 3D contact potentials among protein residues (or amino acids) based on the hierarchical nucleation-propagation model of protein folding. We apply a hybrid approach, using a hidden Markov model (HMM) to extract folding initiation sites, and then apply association mining to discover contact potentials. The new hybrid approach achieves accuracy results better than those reported previously.