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Table 5 Ranking ZDOCK2.3 decoys (IRMSD ≤2.5Å) by the jackknife test

From: Designing coarse grained-and atom based-potentials for protein-protein docking

Complex

Ranka

 

ADPs-II b

Zdock2.3

1B6C

311

168

1BVK

-

-

1DQJ

-

-

1EWY

754

113

1IJK

1131

-

1AVX

955

449

1D6R

-

-

1E96

326

399

1F34

-

26

1GCQ

-

-

1GRN

492

807

1KXP

381

7

1NSN

-

445

1SBB

-

-

1AKJ

-

96

1AY7

236

-

1DFJ

720

1

1EAW

152

13

1I9R

329

90

1UDI

386

13

2PCC

-

-

1AHW

23

56

1BUH

16

-

1E6E

2

103

1ML0

10

1

1PPE

3

1

1QFW

1080

74

1TMQ

9

126

1WEJ

3

102

2JEL

307

86

7CEI

42

1

1BJ1

6

18

1CGI

-

-

1F51

1

11

1KAC

-

1523

1NCA

4

4

1QA9

-

-

2SNI

17

-

1RLB

48

302

Top10

8 (20.5%)

6 (15.4%)

  1. a-Rank of the lowest energy near-native decoy with IRMSD ≤2.5Å out of 54000 predictions.
  2. b-Jackknife test (see Methods)
  3. --No near-native decoy identified among the 2000 best ranked decoys.
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BMC Structural Biology

ISSN: 1472-6807

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