Systematic comparison of SCOP and CATH: a new gold standard for protein structure analysis.

ABSTRACT:

Background

SCOP and CATH are widely used as gold standards to benchmark novel protein structure comparison methods as well as to train machine learning approaches for protein structure classification and prediction. The two hierarchies result from different protocols which may result in differing classifications of the same protein. Ignoring such differences leads to problems when being used to train or benchmark automatic structure classification methods. Here, we propose a method to compare SCOP and CATH in detail and discuss possible applications of this analysis.

Results

We create a new mapping between SCOP and CATH and define a consistent benchmark set which is shown to largely reduce errors made by structure comparison methods such as TM-Align and has useful further ap

SUBMITTER: Csaba G 

PROVIDER: S-EPMC2678134 | biostudies-literature | 2009 Apr

REPOSITORIES: biostudies-literature