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Table 12 DoBi’s performance for proteins of benchmark v4.0 in unbound states

From: Protein-protein binding site identification by enumerating the configurations

Subseta

Typeb

No. of cases

Succ

Accd

Cove

M f

V g

Rigid body

Enzyme-Inhibitor

40

51.2

48.9

66.9

37.1

34.1

 

Antibody-Antigen

22

50.0

51.0

67.8

24.0

14.6

 

Others

59

32.2

37.3

63.5

39.9

36.9

 

Subtotal

121

41.7

43.6

65.4

36.1

31.9

Medium difficult

Enzyme-Inhibitor

7

39.9

36.7

56.2

25.9

17.4

 

Antibody-Antigen

1

0

31.9

41.4

38.0

9.2

 

Others

22

31.2

33.4

56.7

52.9

56.7

 

Subtotal

30

31.6

34.1

56.7

46.1

45.9

Difficult

Enzyme-Inhibitor

5

37.5

43.1

46.5

26.1

7.0

 

Antibody-Antigen

2

0

29.5

54.6

27.3

17.5

 

Others

18

10.5

30.5

54.8

54.9

44.8

 

Subtotal

25

13.9

32.4

53.4

46.9

35.1

Overall

 

176

36.0

40.4

62.2

39.3

36.9

  1. aSubset is based on the magnitude of conformational change after binding.
  2. bType is based on the broad biochemical categories.
  3. cSuc (%) is the success rate of DoBi on the data set.
  4. dAcc (%) is the average accuracy of DoBi on the data set.
  5. eCov (%) is the average coverage of DoBi on the data set.
  6. fM is the average predicted size for DoBi on the data set.
  7. gV is the standard deviation of predicted size for DoBi on the data set.