Table 7 Blind tests of dimer interface recognition: the rank of the native structure. ^aThe top (1AVZ-2SIC) and middle groups are the Sternberg and Vakser test sets, respectively (see Methods). The lower group (T04–T19) are the 2005 CAPRI target structures. ^bColumns 2–5 correspond to the energy functions optimized with OS1 and OS2, using 20, 4, or 6 amino acid classes, as indicated.^cEnergy functions from Refs. [19], [20]. Numbers in bold show cases where the native structure is ranked among the top ten structures.

1AVZ

73

35

67

100

54

40

1BGS

1

65

62

39

16

1

1BRC

76

37

41

31

5

70

1CGI

56

1

1

1

1

18

1DFJ

100

100

100

100

78

100

1FSS

24

1

1

1

1

1

1UGH

11

10

20

10

10

71

1WQ1

99

100

100

100

97

98

2PCC

20

72

82

79

25

23

2SIC

17

48

56

17

14

96

5CHA-2OVO

6

7

3

2

2

3

2PTN-4PTI

5

9

9

33

4

10

1SUP-2CI2

4

4

4

4

5

9

1A2P-1A19

31

58

52

27

20

17

1CHG-1HPT

2

7

4

6

2

4

T04

9

8

10

11

11

1

T05

64

61

62

62

60

60

T06

2

3

3

1

4

3

T07

58

63

62

56

58

64

T08

84

52

68

96

136

145

T09

165

162

164

165

159

164

T11

1

1

2

1

1

1

T12

9

5

6

2

1

5

T13

194

176

179

175

174

175

T14

68

121

91

125

18

43

T15

12

3

4

7

1

1

T18

25

8

7

1

2

4

T19

3

38

22

1

37

6