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Table 1 Structural alignment by different algorithms for two datasets

From: Fr-TM-align: a new protein structural alignment method based on fragment alignments and the TM-score

Average over all pairs (39,800)a

 

⟨cRMSD⟩

⟨cR(core)⟩

⟨TM⟩

⟨PSI %⟩

⟨rPSI %⟩

⟨L⟩

⟨cov %⟩

Dataset 1

       

CE

5.7 (1.1)

2.8 (0.2)

0.185 (0.070)

18.9 (10.3)

8.4 (8.3)

69.9

37.2

TM-align

5.1 (1.0)

2.5 (0.3)

0.255 (0.087)

29.5 (11.1)

17.7 (11.4)

87.8

42.3

Fr-TM-align

5.0 (1.0)

2.5 (0.3)

0.279 (0.091)

33.1 (12.0)

20.0 (12.3)

93.8

45.3

Dataset 2

       

CE

5.7 (1.1)

2.8 (0.2)

0.190 (0.073)

21.5 (11.7)

10.5 (10.1)

65.8

39.7

TM-align

4.8 (1.1)

2.4 (0.4)

0.256 (0.093)

32.3 (11.5)

21.0 (12.3)

77.1

42.1

Fr-TM-align

4.7 (1.0)

2.4 (0.4)

0.280 (0.097)

35.9 (12.2)

23.1 (13.1)

82.6

45.2

  1. a Results are averaged over all structure pairs. cRMSD, cR(core), L, cov, TM, PSI and rPSI denotes coordinate RMSD (in Ã…), cRMSD (in Ã…) for all aligned pairs that contribute to PSI, number of aligned residues, coverage of aligned residues, TM-score, percentage structural similarity and relevant percentage structural similarity (see method section). The number in parenthesis is the standard deviation.
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BMC Bioinformatics

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