Scientific database systems for the analysis of genes and proteins are becoming very important these days. We have developed a deductive database system PACADE for analyzing the three dimensional and secondary structures of proteins. In this paper, we describe the statistical data classification component of PACADE. We implemented the component for cluster analysis and discrimination analysis. In addition, we enhanced the aggregation function in order to calculate the characteristic values which are useful for data classification. By using the cluster analysis function, the proteins are thereby classified into different types of structural characteristics. The results of these structural analysis experiments are also described in this paper.