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Table 1 Known circular permutation results

From: Topology independent protein structural alignment

Protein 1

Protein 2

Us

DaliLite

K2

PDB(Length)

PDB(Length)

N

RMSD

p – value

N

RMSD

N

RMSD

1rinA(180)

2cna_(237)

152*

0.875

10-6

106

1.7

60

0.92

1glh_(214)

1cpn_(208)

192*

1.163

10-5

156

0.4

156

0.41

1exg_(110)

1tul_(102)

74*

1.485

10-4

63

4.0

34

2.26

1rhgA(145)

1bcfA(158)

118*

1.500

10-4

94

2.3

81

1.51

1ihwA(52)

1sso_(62)

46*

0.502

10-3

45

2.9

28

1.93

  1. Comparison of results against DaliLite and K2. DaliLite is not expected to find sequence order independent alignments. K2 did not find the circular permutation even when the sequence order independent options was selected.