Abstract: Prediction of protein-protein interaction sites provides the key clues to understand the function of a protein and drug design.However，many different features of protein provide much information for the prediction of protein-protein interaction sites，especially protein-protein evolution information，residues sequence neighbor list and residues space neighbor list.Different features are not the same for prediction of protein-protein interaction sites.Choosing protein profile of sequence alignment，residues conserved score and residue entropy，suggesting the technology of protein features amalgamation to predict protein-protein interaction sites.This paper adopts SVM to construct three predictors which validate them with different features as input vector，the experiments show the validation and correctness of the method based on feature amalgamation.