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Table 2 Summary of the nine different decoys sets from decoys-R-us

From: Residue contact-count potentials are as effective as residue-residue contact-type potentials for ranking protein decoys

 

Decoys

 

Range of RMSD

DataSet

NoP

NoR

MLen

NoD

MD

Min.

Median

Max.

vhp-mcmd

1

36

33

6256

6256

0.5

7.3

12.8

hg-structal

29

4338

141

870

30

0.5

3.0

30.3

4-state-reduced

7

448

60

4659

666

0.8

5.5

9.4

ig-structal-hires

20

4548

224

400

20

0.7

2.1

6.4

ig-structal

61

13893

224

3720

61

0.7

2.0

6.8

fisa

4

241

52

2003

501

2.8

7.4

14.1

fisa-casp3

4

368

82

5995

1499

3.6

11.6

20.9

lmds

10

534

48

4346

435

2.4

7.8

13.5

semfold

6

440

68

32718

13037

0.1

10.7

15.1

lattice-ssfit

8

565

67

8288

2000

4.7

9.8

15.6

Totals

150

25411

 

69255

    
  1. The nine different sets of decoys taken from the Decoys-R-Us database [54]. For each decoy set, the number of proteins (NoP) in the set is given, along with the total number of residues (NoR) and the mean length of the proteins (MLen). The total (NoD) and mean (MD) number of decoys per-protein is also given. Within each decoy set, the range of RMSD values over all the decoys in the set are indicated, along with the median of that distribution.
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BMC Structural Biology

ISSN: 1472-6807

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