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Table 2 Results for the decoy set.

From: Docking protein domains in contact space

PDB code

native structure

best model

 

rank

D pred

rank

D pred

f nc

1d4f

1

8.20

2

12.72

0.05

1jmc

9

31.74

-

  

1uae

2

10.92

1

10.89

0.15

1a8e

1

22.10

2

23.45

0.17

1arz

1

8.16

2

18.98

0.02

2dri

3

10.67

2

10.35

0.12

1tfb

1

10.81

3

19.37

0.11

13pk

1

10.35

2

11.72

0.05

2nad

1

11.69

3

21.31

0.13

1ex7

6

18.50

2

16.10

0.28

1tde

1

17.24

-

  

9aat

2

10.23

1

10.12

0.84

6adh

1

12.57

2

12.69

0.81

1h9m

2

12.72

5

17.27

0.13

8atc

1

6.55

2

8.29

0.82

1l7p

1

8.26

3

8.75

0.82

1njf

1

9.70

2

16.41

0.03

4cts

1

14.64

2

15.17

0.90

1dpp

8

35.12

-

  

1dv2

1

11.80

2

15.89

0.08

  1. The decoy set comprises 10 GRAMM-X solutions plus the native structure. The decoys have been ordered in increasing values of D pred . The rank and the corresponding D pred of the native structure are reported. Similarly for the best model generated by GRAMM-X, for which f nc is also shown (f nc ≡ 1 for the native structure). In 3 cases (1jmc, 1tde and 1dpp) is not possible to identify a best model.