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The ratio of the best average z-scores obtained with the Blosum62 combined with topology-based matrices to the Blosum62 z-score for the all helical protein set, for varying cutoff distances in the structure alignment. The z-scores are obtained for Blosum62 combined with topology-based matrices for a range of weight coefficients. The maximum (best) z-score for each topology is averaged over all helical topologies to obtain the best new z-score for the all helical class
