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Table 4 Optimized weights.

From: Docking protein domains in contact space

PDB code

w 2

w 4

w 5

1d4f

2

8

4

1jmc

2

8

4

1uae

2

8

4

1a8e

2

8

4

1arz

16

32

32

2dri

2

8

4

1tfb

2

8

4

13pk

16

32

32

2nad

2

8

4

1ex7

2

8

4

1tde

1

4

2

9aat

2

8

4

6adh

2

8

4

1h9m

2

8

4

8atc

2

8

4

1l7p

2

8

4

1njf

2

8

4

4cts

16

32

32

1dpp

8

32

16

1dv2

2

8

4

  1. Linear weights of the scoring function obtained with a leave-one-out cross validation. The first column reports the PDB codes; w2, w4 and w5 are respectively the weights associated with pair potential, residue conservation and correlated mutations. The weight of surface complementarity has been set arbitrarily to w1 = 1; the weight for interface propensity is negligible and therefore ignored (i.e. w3 = 0).