Protein structure modeling using a spatial model for structure comparison

Abstract

Features of newly emerging protein structure data are very large, extremely complex and multi dimensional. Furthermore, it is complicated to manage structural information with flat file for comparison and prediction of protein structure. Therefore, it is necessary to make a model of protein structures to store them into database and to represent spatial arrangements and topological relationships for providing analysis applications of protein structures with structural information. This paper describes extracting structural features from flat file, making a model protein structures based on a network spatial model and querying relationships among protein structures using topological and geometric operators. Existing spatial DBMS can store and retrieve spatial features of protein structures with spatial index by protein structure modeling using spatial types. © Springer-Verlag 2003.