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Properties of CAPRI targets

 

   N

a 

 b

PDP-based rank of near-native complexc

HPr kinase / HPr

102

8

4

5

rotavirus VP6 / Fab

88

4

7

5

hemagglutinin / Fab HC63

90

4

48

18

a-amylase / camelide VH_1

66

1

2

40

a-amylase / camelide VH_2

65

1

3

27

a-amylase / camelide VH_3

65

9

4

4

T cell receptor / exotoxin A

70

19

1

8

Nidogen-G3/laminin EGF

179

12

3

6

LicT homodimer

162

32

1

1

a Number of predicted complexes submitted for each CAPRI target.b Number of correctly predicted (hit) structures among those submitted.c Near-native is defined by RMSD < 10 Å.

Docking potentials differ from folding potentials
 

Docking Potentials

Comparison of side chain-side chain contact potentials for protein docking and protein folding. Panel A and B compare the optimally designed PDPs (ordinate) with the TE (panel A) and MJ (panel B) potentials derived from folded structures. Weak correlations are observed between the two sets. Panel C compares the two sets of folding potentials. The best fitting lines and correlation coefficients are shown on the panels.