Table 7

Benchmark Tests of ProCKSI: Calculation Times. Calculation times of all datasets with different similarity comparison methods used for the benchmark tests of ProCKSI. For USM and MaxCMO, the calculation times include the preparation times for the contact maps (CM) needed. The datasets are defined in Table 6

Dataset

Times [min] for

CM

USM

FAST

TM-align

DaliLite

CE

MaxCMO

CK34

0.48

1.72

3.20

2.08

19.95

16.78

81.70

CK53

0.73

4.23

5.07

4.97

50.93

48.42

210.23

PK45

1.08

5.83

11.93

7.90

107.67

69.03

471.70

PK49

1.10

7.20

9.62

7.68

112.65

66.62

470.52

LKR6

0.18

1.20

1.23

1.00

3.90

1.40

19.43

LKR15

0.42

1.93

1.58

1.40

14.60

6.70

70.27

RS119

1.77

17.18

17.15

28.75

210.63

305.95

1111.62

RS212

3.15

47.18

50.07

83.05

613.70

867.52

3275.48

S33

0.37

1.93

1.73

1.73

22.02

8.73

76.90

S73

0.83

4.88

6.57

8.17

124.43

51.87

419.03

Barthel et al. BMC Bioinformatics 2007 8:416   doi:10.1186/1471-2105-8-416