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Table 11 The added value of re-ranking with weighted scores (cumulative observed model quality)

From: Benchmarking consensus model quality assessment for protein fold recognition

 

TM-score

MaxSub

GDT

Combined

ModFOLD

0.69

0.67

0.70

0.69

ProQLG

0.56

0.56

0.57

0.56

PROQ*

0.55

0.57

0.55

0.56

MODCHECK

0.48

0.47

0.46

0.47

ProQMX

0.19

0.33

0.33

0.28

3D-Jury†

0.01

-0.04

-0.04

-0.02

ModSSEA

-0.07

-0.02

0.00

-0.03

Random

-3.41

-3.62

-3.78

-3.58

  1. Similar to Table 9, however the original server ranking is also considered and added to the score as an extra weighting ((6-r)/40, where r is the original server ranking between 1 and 5). 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.