PoPS statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

PoPS specifications


Unique identifier OMICS_06954
Name PoPS
Alternative name Prediction of Protease Specificity
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Advanced
Stability Stable
Maintained Yes




No version available

Publication for Prediction of Protease Specificity

PoPS citations


Software aided approach to investigate peptide structure and metabolic susceptibility of amide bonds in peptide drugs based on high resolution mass spectrometry

PLoS One
PMCID: 5665424
PMID: 29091918
DOI: 10.1371/journal.pone.0186461

[…] re developed to identify the most possible protease and/or the labile residues and the most likely cleavage site for the studied protein/peptide. However, these tools (SitePrediciting [], PROSPER [], PoPS [], PeptideCutter []) are based on available literature or rely on the MEROPS database and therefore are limited to the 20 standard amino acids [] and thus do not properly cover unnatural amino a […]


Block based characterization of protease specificity from substrate sequence profile

BMC Bioinformatics
PMCID: 5627433
PMID: 28974219
DOI: 10.1186/s12859-017-1851-1

[…] ate-sequence information to specificities of proteases to highlight the enzymatic preferences, especially for specific catalytic types []. Integrating features of substrate sequences characteristics, PoPS [] and PROSPER [] are proposed to predict protease substrate cleavage sites. A well-designed approach of identifying the specificity of the protease will contribute to a better method of predicti […]


Profiling the Extended Cleavage Specificity of the House Dust Mite Protease Allergens Der p 1, Der p 3 and Der p 6 for the Prediction of New Cell Surface Protein Substrates

Int J Mol Sci
PMCID: 5535866
PMID: 28654001
DOI: 10.3390/ijms18071373

[…] obability of amino acid x occurring in a given library and n is the total number of sequences analyzed.Related standard deviations Δσ were then normalized to the range −5.0 to +5.0 as required by the PoPS interface []. Specificity matrices for Der p 1, Der p 3 and Der p 6 were modeled and used to screen, among the human proteome, new potential cell surface protein substrates targeted by these HDM […]


Proteolytic inactivation of nuclear alarmin high mobility group box 1 by complement protease C1s during apoptosis

PMCID: 5018544
PMID: 27648302
DOI: 10.1038/cddiscovery.2016.69

[…] The Web-based PoPS software (http://pops.csse.monash.edu.au/) was used to predict C1s cleavage sites on HMGB1., The C1s cleavage site encompassed eight residues with a core arginine residue recognized by the S1 sub […]


Analysis of the minimal specificity of caspase 2 and identification of Ac VDTTD AFC as a caspase 2 selective peptide substrate

Biosci Rep
PMCID: 3966047
PMID: 27919034
DOI: 10.1042/BSR20140025

[…] scribed [,]. Weighted P4–P2 transcriptional reporter data were used to generate a matrix model (Supplementary Table S1; available at http://www.bioscirep.org/bsr/034/bsr034e100add.htm). The Web-based PoPS program [] was used to screen the National Center for Biotechnology Information (NCBI) protein database for potential substrates. […]


PROSPER: An Integrated Feature Based Tool for Predicting Protease Substrate Cleavage Sites

PLoS One
PMCID: 3510211
PMID: 23209700
DOI: 10.1371/journal.pone.0050300

[…] In recent years, several general tools have been developed to predict cleavage sites for various proteases, such as PoPS and SitePrediction . To objectively compare the prediction results, we first tested these three tools on the same training and testing datasets, based in turn on the compiled substrate datasets. […]


Looking to check out a full list of citations?

PoPS institution(s)
School of Computer Science and Software Engineering and The Victorian Bioinformatics, Consortium, Monash University, Melbourne, Victoria, Australia

PoPS reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review PoPS