The UCLA-DOE Benchmark To Assess The Performance Of Fold Recognition Methods.

With the recent explosion of new methods for fold recognition, an objective way to evaluate their performance is needed. We have developed a benchmark to assess the performance of fold-recognition methods. The benchmark consists of a set of 68 protein sequences matched by superposition to known structures. This set covers a wide range of protein families, and includes matching proteins with insignificant sequence similarity.

The user of the benchmark evaluates his/her own method by searching the benchmark's library of 301 folds of known structure, with each of the 68 test sequences , in order to find the most compatible fold. The performance is evaluated using two criteria: sensitivity and selectivity.

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