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Table 2 Prediction results of PLB-SAVE, SiteHound, and MPK2 using the APO dataset (388 proteins).

From: Protein-ligand binding region prediction (PLB-SAVE) based on geometric features and CUDA acceleration

APO dataset

PLB-SAVE (373 proteins)

SiteHound (373 proteins)

Sensitivity

0.527

0.379

Specificity

0.968

0.955

Accuracy

0.934

0.912

PPV

0.583

0.399

MCC

0.509

0.332

(a)

APO dataset

PLB-SAVE (342 proteins)

MPK2 (342 proteins)

Sensitivity

0.534

0.719

Specificity

0.965

0.918

Accuracy

0.929

0.899

PPV

0.585

0.436

MCC

0.511

0.496

(b)

  1. Calculations were performed only on proteins whose binding regions had been successfully predicted by SiteHound and MPK2. Numbers in bold indicate which software gave the better performance for each parameter. (a) PLB-SAVE compared with SiteHound using 373 proteins. (b) PLB-SAVE compared with MPK2 with using 342 proteins.
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BMC Bioinformatics

ISSN: 1471-2105

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