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Table 8 Benchmarking based on three standard decoy sets from the Decoys 'R' Us database

From: Benchmarking consensus model quality assessment for protein fold recognition

 

4state_reduced

Lattice_ssfit

LMDS

Method

Z-score

Rank 1

Z-score

Rank 1

Z-score

Rank 1

ModFOLD

3.74

5/7

10.12

7/8

3.33

5/10

PROQ-LG

3.73

3/7

11.19

7/8

1.91

1/10

PROQ-MX

3.44

4/7

18.15

7/8

2.15

3/10

MODCHECK

2.20

3/7

5.05

8/8

1.64

3/10

ModSSEA

1.95

3/7

4.31

6/8

1.62

3/10

  1. Rank 1 – the number of native structures correctly ranked first by each method out of the total proteins in decoy set; Z-score – the average Z-scores calculated as the distance in standard deviations from the MQAP score of the native structure to the mean score of the decoy set.