The Similarity Comparison of G-Protein Coupled Receptor Based on Structural Matrix Algorithm
ICCIS '10 Proceedings of the 2010 International Conference on Computational and Information Sciences(2010)
摘要
Based on the chemical property of amino acids and the related properties of protein secondary structure, 20 amino acids were classified into the following four types: hydrophilic, polar, charged, namely X=HPC={D, N, S, H, T, C}, hydrophobic, nonpolar, namely Z=H A={Y, F, V, I, W, M}, non-polar and small in size, namely B=AS={G, P}, others, namely J=O={R, K, E, A, Q}. With the help of classification, a protein sequence was transformed into a time series through mapping, which used the number of 1, 2, 3, 4 to represent X, Z, B, J respectively and was introduced to describe the structural character of protein sequences. Then a similarity model of the protein sequences was built by the similarity measurement of structural matrix, which was defined according to some characters of structural matrix. At last, 36 kinds of G-protein coupled receptors were analyzed to verify the effectiveness of the proposed method.
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关键词
biochemistry,biology computing,classification,molecular biophysics,molecular configurations,proteins,time series,G-protein coupled receptor,charged amino acids,chemical property,classification,hydrophilic amino acids,hydrophobic nonpolar amino acids,polar amino acids,protein secondary structure,protein sequence,similarity comparison,structural matrix algorithm,time series,GPCR,similarity,structural matrix,time series,
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