PreDisorder is a software which predict the disordered regions from protein sequences.

PreDisorder software was ranked among the best protein disorder prediction software in the last three Critical Assessments of Techniques for Protein Structure Prediction (CASP7,8,9) in 2006, 2008, and 2010, respectively. (no. 2 automated method in CASP9) .

PreDisorder1.0.tar.gz: prediction of protein disordered regions.

PreDisorder1.1.tar.gz: the latest release. Change since version 1.0: the predicted probability is scaled in order to increase the sensitivity of prediction.

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Installation (Linux Version):

0. Install PSpro package (PSpro1.1 or PSpro2.0) first. Get it from: http://sysbio.rnet.missouri.edu/multicom_toolbox/. Very easy to install.

1.unzip predisorder1.1.tar.gz
e.g. tar xzf predisorder1.1.tar.gz

2.change directory into predisorder1.1
e.g. cd predisorder1.1

3. edit configure.pl
set PreDisorder path ($install_dir) and PSpro path ($pspro_dir) to their installation directories.

4. run configure.pl
e.g. ./configure.pl

Installation is done.

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Check the integrity of installation
cd test
../bin/predict_diso.sh seq.fasta test.out

The result in test.out should be the same as that in seq.diso.
Output format:
line 1: sequence
line 2: D -> disorer, O -> order
line 3: probability of disorder. You can set different
thresholds to make your own disorder/order predictions.
line 2 are generated by setting threshold to 0.5.

Scripts in bin subdirectory:

predict_diso.sh: predict disordered residues

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References:

X. Deng, J. Eickholt, and J. Cheng. PreDisorder: Ab Initio Sequence-Based Prediction of Protein Disordered Regions. BMC Bioinformatics, 10:436, 2009.

J. Hecker, J. Yang, and J. Cheng. Protein Disorder Prediction at Multiple Levels of Sensitivity and Specificity. BMC Genomics. 9(S1):S9, 2008.

J. Cheng, M. Sweredoski, and P. Baldi. Accurate Prediction of Protein Disordered Regions by Mining Protein Structure Data, Data Mining and Knowledge Discovery, vol. 11, no. 3, pp. 213-222, 2005.

Contact:

Jianlin Cheng
Assistant Professor
Department of Computer Science
Informatics Institute
University of Missouri, Columbia

Copyright:
Free for academic/scientific use.