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Table 9 SP scores for different weights of secondary structures on the SABmark benchmark. Bold denotes the two best scores, and an extra superscript of star denotes the highest score.

From: MSACompro: protein multiple sequence alignment using predicted secondary structure, solvent accessibility, and residue-residue contacts

W2 0 0.1 0.2 0.3 0.4 0.5 0.6 0.7 0.8 0.9 1
SP 60.553 62.988 65.514 67.333 68.348 68.698 * 68.465 68.159 67.282 66.153 64.745
  1. The results show that using secondary structure information (i.e. w2 > 0) always increases the alignment scores over without using it (i.e. w2 = 0). MSACompro yielded the highest accuracy score of ~68.70 when w2 is set to 0.5.