GlycoPP 1.0 – Prediction of Glycosites in Prokaryotic Protein Sequences

GlycoPP 1.0

:: DESCRIPTION

GlycoPP is a webserver for predicting potential N-and O-glycosites in prokaryotic protein sequence(s), where N-glycosite is an Asn residue and O-glycosite could be a serine or threonine residue having a glycan attached covalently and enzymatically at amide or hydroxyl group respectively.

::DEVELOPER

GlycoPP team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

PLoS One. 2012;7(7):e40155. doi: 10.1371/journal.pone.0040155. Epub 2012 Jul 9.
GlycoPP: a webserver for prediction of N- and O-glycosites in prokaryotic protein sequences.
Chauhan JS1, Bhat AH, Raghava GP, Rao A.

FrameD 20070223 – Predict Coding Regions in Prokaryotic and Eukaryotic Sequence

FrameD 20070223

:: DESCRIPTION

FrameD is a program that predicts coding regions in prokaryotic and eukaryotic sequences that may contain frameshifts.

::DEVELOPER

Thomas Schiex

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows

:: DOWNLOAD

 FrameD

:: MORE INFORMATION

Citation

FrameD: a flexible program for quality check and gene prediction in prokaryotic genomes and noisy matured eukaryotic sequences
Thomas Schiex, Jérôme Gouzy, Annick Moisan, and Yannick de Oliveira
Nucl. Acids. Res. 2003 31: 3738-3741.

MetaPred2CS 1.1 – Meta-predictor for Protein-protein Interactions of Prokaryotic Two-component System Proteins

MetaPred2CS 1.1

:: DESCRIPTION

MetaPred2CS Web server is a meta-predictor based on Support Vector Machine (SVM) that combines 6 individual sequence based protein-protein interaction prediction methods to predict prokaryotic two-component system protein-protein interactions (PPIs).

::DEVELOPER

Bioinformatics @ IBERS

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 MetaPred2CS

:: MORE INFORMATION

Citation

Bioinformatics. 2016 Jul 4. pii: btw403.
MetaPred2CS: a sequence-based meta-predictor for protein-protein interactions of prokaryotic two-component system proteins.
Kara A, Vickers M, Swain M, Whitworth DE, Fernandez-Fuentes N.

P2RP – Predicted Prokaryotic Regulatory Proteins

P2RP

:: DESCRIPTION

P2RP is a web-server  which enables users to identify and annotate TFs and TCS proteins within their sequences of interest.

::DEVELOPER

CEA, LIFE SCIENCES DIVISION

:: SCREENSHOTS

 N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

NO

:: MORE INFORMATION

Citation

BMC Genomics. 2013 Apr 20;14:269. doi: 10.1186/1471-2164-14-269.
P2RP: a Web-based framework for the identification and analysis of regulatory proteins in prokaryotic genomes.
Barakat M1, Ortet P, Whitworth DE.

PSP 20120706 – Calculating Prokaryotic Selection Pressure

PSP 20120706

:: DESCRIPTION

PSP: An easy-to-use web tool for rapid identification of orthologous genes with positive selection from set of multiple, closely related prokaryotic genomes.

::DEVELOPER

Fei Su, PhD

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

BMC Genomics. 2013 Dec 27;14:924. doi: 10.1186/1471-2164-14-924.
PSP: rapid identification of orthologous coding genes under positive selection across multiple closely related prokaryotic genomes.
Su F, Ou HY, Tao F, Tang H, Xu P