A Framework for Structural Similarity Search in Proteins
نویسندگان
چکیده
The expanding protein sequence and structure databases await methods allowing rapid similarity search. A novel framework for structural similarity search in proteins is developed. It can not only distinguish the local similarity case, but also can detect the overall similarity in some sense. First, geometrical distance of Cα-Cα is used in evaluating structural similarity in proteins. Then a simple score metric is given out according to the geometrical distance for local similar fragment pairs. The rigid superimposition algorithm is used for computation of RMSD and rotation matrix. In order to detect the overall structure similarity, the notion of spacial compatibility is introduced using rotation matrix. Experimental analysis verifies that the novel framework is effective.
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