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Table 4 TM-scores of models refined using the membrane potential

From: Membrane protein orientation and refinement using a knowledge-based statistical potential

 

MP refined

MP and MODELLER refined

Target

FILM3 recombined

Post-refinement

Delta TM-score

FILM3 recombined

Post-refinement

Delta TM-score

1fftC

0.67

0.76

0.08

0.67

0.77

0.10 

1gzmA

0.80

0.82

0.02

0.79

0.82

0.03 

1ldiA

0.71

0.72

0.02

0.74

0.75

0.00 

1pw4A

0.71

0.74

0.03

0.72

0.75

0.03 

1xqfA

0.79

0.79

0.00

0.79

0.79

0.00 

2abmH

0.78

0.81

0.02

0.80

0.83

0.03 

2b2fA

0.72

0.78

0.06

0.73

0.79

0.06 

2d2cN

0.67

0.71

0.04

0.69

0.75

0.06 

2d57A

0.81

0.79

-0.03

0.82

0.79

-0.02 

2f2bA

0.77

0.76

-0.01

0.79

0.79

-0.01 

2feeB

0.63

0.70

0.07

0.65

0.71

0.06 

2nq2A

0.65

0.76

0.10

0.66

0.74

0.08 

2nr9A

0.66

0.73

0.06

0.68

0.75

0.07 

2occA

0.81

0.81

0.00

0.83

0.83

0.00 

2onkC

0.68

0.66

-0.03

0.68

0.67

-0.01 

2q7rA

0.47

0.50

0.03

0.37

0.55

0.18 

2qfiA

0.57

0.57

0.00

0.58

0.58

0.00 

2r6gG

0.57

0.60

0.04

0.56

0.63

0.07 

2witA

0.38

0.38

0.00

0.38

0.39

0.01 

2wswA

0.50

0.59

0.09

0.56

0.62

0.06 

2ydvA

0.71

0.71

0.00

0.72

0.70

-0.02 

2z73A

0.73

0.81

0.08

0.75

0.80

0.06 

3b9wA

0.65

0.65

0.00

0.67

0.67

0.00 

3dhwA

0.58

0.68

0.10

0.60

0.67

0.07 

3mk7A

0.53

0.58

0.05

0.58

0.60

0.01 

3mktA

0.73

0.73

0.00

0.73

0.73

0.00 

3pjzA

0.78

0.79

0.01

0.80

0.78

-0.02 

3qnqA

0.61

0.62

0.01

0.63

0.60

-0.03 

  1. Scores were calculated using helical Cα residues only. Columns 2-4 compare models refined using the membrane potential with the recombined FILM3 models. Columns 5-7 compare models refined using the membrane potential and MODELLER with the final FILM3 models, which were also refined using MODELLER.