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Table 1 Benchmarking accessibility predictors

From: MPRAP: An accessibility predictor for a-helical transmem-brane proteins that performs well inside and outside the membrane

 

Mem Proteins

W-S Proteins

 

All

Z:0-10

Z:10-22

Z: > 22

Membr

non-Membr.

All

MPRAP

0.45

0.47

0.40

0.49

0.45

0.46

0.55

ACCPRO

0.41

0.19

0.34

0.53

0.20

0.47

0.63

SABLE

0.29

0.08

0.24

0.46

0.11

0.38

0.55

TMX

0.21

0.35

0.19

0.13

0.32

0.14

-

ACCPRO+TMX

0.39

0.33

0.30

0.53

0.31

0.47

-

ASAP mem

0.12

0.05

0.14

0.11

0.08

0.13

-

ASAP extmem

0.40

0.26

0.41

0.47

0.27

0.44

-

ASAP glob

0.32

0.11

0.25

0.46

0.11

0.36

-

  1. A comparison of the performance for different accessibility predictors using two-state predictions in water-soluble (W-S) proteins and membrane (Mem) proteins. The reported values are the Matthew correlation coefficients for identifying buried residues in a binary alphabet. Analysis was performed the entire protein (whole) or regions in the membrane either divided by Z-coordinate or by membrane definitions from OPM. Due to computational limitations only three predictors were applied on the water-soluble dataset.
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BMC Bioinformatics

ISSN: 1471-2105

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