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Table 9 The added value of re-ranking models measured by cumulative observed model quality

From: Benchmarking consensus model quality assessment for protein fold recognition

 

TM-score

MaxSub

GDT

Combined

ModFOLD

0.42

0.42

0.47

0.44

ProQLG

0.27

0.32

0.33

0.31

PROQ*

0.23

0.34

0.30

0.29

MODCHECK

0.25

0.32

0.30

0.29

ProQMX

-0.09

0.05

0.00

-0.01

3D-Jury†

-0.49

-0.61

-0.59

-0.56

ModSSEA

-1.12

-1.06

-0.97

-1.05

Random

-3.61

-3.56

-3.48

-3.55

  1. The mean difference in cumulative observed model quality scores if each MQAP method is used to re-rank the models from each individual fold recognition server. The results achieved from a random re-ranking of models from each server (random assignment of scores between 0 and 1) are also shown for comparison. * The official predicted MQAP scores for these methods were downloaded from CASP7 website; all other MQAP methods were run in house during the CASP7 experiment. † MQAP methods which rely on the comparison of multiple models or additional information from multiple servers; all other methods are capable of producing a single score for a single model.