Abstract: A new method based on the combination of the discrete wavelet transform(DWT) and cross-covariance, named as sequence wavelet hiberarchy correlation method(SWHCM), is presented which reveals the relationship among the structure, function and evolution of proteins via the hydrophobic character of amino acids. The trypsin proteins of different species were chosen as the examples to describe the application of this method to revealing the evolution relationship according to the evolution vectors. The protein phosphatase, hemoglobin and lysozome were chosen as the examples to describe the intrinsic function-sequence relationship according to the function vectors by using this method. We can draw a conclusion that our non-parametric method is simple, visual and performs reasonably well without knowing the structure of proteins in advance, which is a promising approach to revealing the relationship between two compared proteins at different spatial resolutions.

Key words: Sequence wavelet hiberarchy correlation method, Proteins, Structure, Function, evolution