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Table 2 Quality assessment by 3 reference-independent measures

From: MICAN : a protein structure alignment algorithm that can handle Multiple-chains, Inverse alignments, C α only models, Alternative alignments, and Non-sequential alignments

Dataset Measure DaliLite TM-align CE MICAN DEDAL SNAP GANGSTA+ SCALI MASS SAMO
  N ali 83.5 85.1 76.5 82.9 74.1 73.3 78.7 63.0 67.4 81.8
MALIDUP-sq N ali 83.5 80.5 76.2 82.9 74.1 73.3 78.7 63.0 53.9 57.9
  RMSD 2.73 2.61 2.87 2.60 2.46 2.05 2.65 2.35 1.65 2.55
  N gap 5.5 8.8 3.9 4.1 4.0 5.0 3.2 4.2 18.6 32.5
  N ali 80.4 81.2 54.1 81.0 69.7 68.3 75.5 58.0 62.0 83.2
MALISAM-sq N ali 80.4 73.0 53.8 81.0 69.7 68.3 75.5 58.0 40.2 41.7
  RMSD 3.12 3.07 3.09 3.01 2.95 2.32 2.93 2.60 1.85 2.93
  N gap 4.8 9.5 2.3 3.6 3.8 4.6 3.4 3.5 17.4 33.4
  N ali 61.4 60.5 81.6 73.6 72.9 73.3 60.2 67.6 77.5
MALIDUP-ns N ali 61.4 55.5 81.6 73.6 72.9 73.2 60.2 53.8 41.2
  RMSD 2.73 2.94 2.57 2.46 2.01 2.47 2.37 1.65 2.84
  N gap 3.4 7.6 4.0 4.0 5.2 3.4 4.1 18.9 42.1
  N ali 63.0 63.2 79.9 69.1 68.2 70.0 57.6 61.7 81.6
MALISAM-ns N ali 63.0 54.8 79.9 69.1 68.2 69.9 57.6 39.7 35.4
  RMSD 3.47 3.36 2.97 3.01 2.32 2.87 2.64 1.86 2.99
  N gap 3.5 8.1 3.7 3.8 4.7 3.3 3.6 17.5 36.8