A simple method of identifying symmetric substructures of proteins

作者：Chen Hanlin; Huang Yanzhao; Xiao Yi^*

来源：Computational Biology and Chemistry, 2009, 33(1): 100-107.

DOI：10.1016/j.compbiolchem.2008.07.026

• Structural symmetry
• dRMSD
• Similarity matrix
• Pearson's correlation

Accurate identifications of internal symmetric substructures of proteins are needed in protein evolution study and protein design. To overcome the difficulties met by previous methods, here we propose a simple quantitative one by using a similarity matrix plus Pearson's correlation analysis. The distance root-mean-square deviation (dRMSD) is used to measure the similarity of two substructures in a protein. We applied this method to the proteins of the beta-propeller,jelly roll,and beta-trefoil families and the results show that this method cannot only detect the internal repetitive structures in proteins effectively. but also can identify their locations easily.

• 出版日期2009-2
• 单位华中科技大学