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Table 2 Comparisons of our algorithm with method of [24] for circularly permuted proteins.

From: Revealing divergent evolution, identifying circular permutations and detecting active-sites by protein structure comparison

 

ID/Size

ID/Size

SAMO

Method in [24]

   

λ

rms

m

rms

m

Naturally occurring

1RIN/180

2CNA/237

6.0

1.581

174

0.877

45

 

1RSY/121

1QAS/123

6.0

1.741

118

1.107

44

 

1NKL/78

1QDM/74

6.0

2.852

72

1.823

48

 

1ONR/316

1FBA/360

6.0

3.016

244

2.444

77

 

1AQI/382

1BOO/282

6.0

3.329

200

3.571

66

Human made

1AVD/123

1SWG/112

6.0

2.499

98

0.815

66

 

1GBG/214

1AJK/212

6.0

2.879

182

0.347

110