Links   

This table provides detailed links and descriptions with respect to previously developed servers or softwares for protease substrate cleavage sites prediction.

Note that among them, three are general cleavage site prediction servers (PeptideCutter, PoPS and SitePrediction), the others are family-specific servers that were specifically designed to model and predict the substrate specificity for a particular protease, such as PEPS, CasPredictor, GraBCas, CASVM and Cascleave.

 

Predictors Description URL address Features
PeptideCutter Predict potential cleavage sites cleaved by proteases or chemicals http://au.expasy.org/tools/peptidecutter/ Amino acid occurrence
PEPS Rule-based endopeptidase cleavage site scoring matrices and predict paspase-3 substrates not available Position-specific scoring matrices (PSSM)
CasPredictor Predict Caspase cleavage sites http://icb.usp.br/~farmaco/Jose/CaSpredictorfiles Amino acid
substitution, amino acid frequency and the presence of
' PEST' sequences was used as the input features
GraBCas Position-specific scoring prediction of cleavage sites for caspase 1-9 and granzyme B http://wwwalt.med-rz.uniklinik-saarland.de/med_fak/humangenetik/software/index.html Improved position specific scoring scheme
CASVM SVM-based prediction of caspase cleavage sites http://casbase.org/casvm/index.html SVM
classifiers trained with sequence segments containing the
tetrapeptide cleavage sites
PoPS Prediction of protease specificity http://pops.csse.monash.edu.au/pops-cgi/ Amino acid occurrence, Position-specific scoring matrices (PSSM), predicted structure information such as substrate secondary structure and solvent accessibility
Cascleave Predict substrate cleavage site of caspases http://sunflower.kuicr.kyoto-u.ac.jp/~sjn/Cascleave/ Multiple sequential and structural features including local amino acid sequence profile, predicted solvent accessibility and native disorder features
SitePrediction Predicting the cleavage of proteinase substrastes http://www.dmbr.ugent.be/prx/bioit2-public/SitePrediction/ Amino acid occurrence, 'PEST' sequences, and structural information such as secondary structure and solvent accessibility

 

 

 


Copyright © 2012-2018. Monash Bioinformatics Platform, School of Biomedical Sciences, Faculty of Medicine, Monash University, Australia