A Multi-Level Approach to SCOP Fold Recognition

The classification of proteins based on their structure can play an important role in the deduction or discovery of protein function. However, the relatively low number of solved protein structures and the unknown relationship between structure and sequence requires an alternative method of representation for classification to be effective. Furthermore, the large number of potential folds causes problems for many classification strategies, increasing the likelihood that the classifier will reach a local optima while trying to distinguish between all of the possible structural categories. Here we present a hierarchical strategy for structural classification that first partitions proteins based on their SCOP class before attempting to assign a protein fold. Using a well-known dataset derived from the 27 most-populated SCOP folds and several sequence-based descriptor properties as input features, we test a number of classification methods, including Na¨ıve Bayes and Boosted C4.5...

• Type: Conference
• Year: 2005
• Where: BIBE
• Authors: Keith Marsolo, Srinivasan Parthasarathy, Chris H. Q. Ding
• Keywords: BIBE 2005, Bioinformatics, Most-populated Scop Folds, Protein, Solved Protein Structures