Method for calculating and identifying protein kinase phosphorylation specific sites

Abstract

The invention discloses a method for calculating and identifying protein kinase phosphorylation specific sites, which is characterized in that, the method comprises the following steps: a) establishing a new protein sequence structure characterization method-amino acid three-dimensional character scoring based on the active ingredient analysis method; b) using the amino acid three-dimensional character scoring for characterizing the structure features of the protein kinase phosphorylation specific sites; c) using a Fisher criterion scoring method for selecting parameters which are closely related to the features of the protein kinase phosphorylation specific sites; and d) and establishing a protein kinase phosphorylation specific site identification model by a radial basis kernel support vector machine, carrying out the self-replacement verification respectively, and using the retaining 1 / 10 cross-verification and the external verification for verifying the predictive capability of the method. The method can be used for the identification of the protein kinase phosphorylation specific sites, explore the protein phosphorylation rules under physiological and pathological states, further elaborate the nature of life and the disease pathogenesis and provide the important support for developing new drugs.

Description

technical field [0001] The invention relates to a protein modification site identification method, in particular to a protein kinase phosphorylation specific site calculation identification method. Background technique [0002] The process of protein phosphorylation and dephosphorylation regulates almost all life activities such as cell signal transduction, cell differentiation, cell growth, and apoptosis. Protein phosphorylation sites mainly occur at tyrosine (Y), serine (S) and threonine (T) residues (Wu et al., J Proteome Res, 2007, 6(5): 1812). Abnormal protein phosphorylation often leads to abnormal cell life activities, and even cell damage or cell canceration (Yang et al., J Proteome Res, 2006, 5(5): 252). Therefore, exploring the rules of protein phosphorylation in physiological and pathological states is very important for elucidating the essence of life and the mechanism of disease occurrence and developing new drugs. [0003] Experimental means to identify kinas...

AI Technical Summary

Problems solved by technology

However, the existing phosphorylation site prediction methods all have the problem of not being able to obtain higher sensitivity and specificity at the same time, and the prediction accuracy rate is still not high (Tang et al., Protein Engineering. Design & Selection, 2007, 20 (8): 405 ), so it is necessary to develop a protein kinase phosphorylation-specific site identification method with high sensitivity, specificity and prediction accuracy

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