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Computational and Mathematical Methods in Medicine
Volume 2013, Article ID 197892, 8 pages
Research Article

A Modified Amino Acid Network Model Contains Similar and Dissimilar Weight

1Institute of Applied Mechanics and Biomedical Engineering, Taiyuan University of Technology, Taiyuan 030024, China
2College of Computer Science and Technology (College of Software), Taiyuan University of Technology, Taiyuan 030024, China

Received 7 November 2012; Revised 22 December 2012; Accepted 23 December 2012

Academic Editor: Guang Hu

Copyright © 2013 Xiong Jiao et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.


For a more detailed description of the interaction between residues, this paper proposes an amino acid network model, which contains two types of weight—similar weight and dissimilar weight. The weight of the link is based on a self-consistent statistical contact potential between different types of amino acids. In this model, we can get a more reasonable representation of the distance between residues. Furthermore, with the network parameter, average shortest path length, we can get a more accurate reflection of the molecular size. This amino acid network is a “small-world” network, and the network parameter is sensitive to the conformation change of protein. For some disease-related proteins, the highly central residues of the amino acid network are highly correlated with the hot spots. In the compound with the related drug, these residues either interacted directly with the drug or with the residue which is in contact with the drug.