PONGO

PONGO is a software tool developed by the BIOSAPIENS European Network of Excellence, aiming to integrate Bioinformatics resources and annotate metazoan genomes. It provides annotation on a predictive basis for all-alpha membrane proteins in the human genome, using a combination of four selected and high-scoring predictors: TMHMM2.0, MEMSAT, PRODIV, and ENSEMBLE1.0.

This annotation is available through Distributed Annotation System (DAS) queries and directly through a simple web interface. The stored and pre-computed predictions for human proteins can be searched and displayed in a graphical view. Moreover, PONGO's web service allows the prediction of the topology of any kind of putative membrane proteins, regardless of the organism, and with the same sequence profile for a given sequence when required.

Topic

Membrane and lipoproteins;Protein sites, features and motifs;Protein folds and structural domains;Small molecules;Gene transcripts

Detail

  • Operation: Peptide immunogenicity prediction;Protein signal peptide detection

  • Software interface: Web user interface

  • Language: Python

  • License: -

  • Cost: Free

  • Version name: -

  • Credit: Biosapiens Network of Excellence project, the European Commission FP6 Programme, under the thematic area ‘Life sciences, genomics and biotechnology for health’, MIUR, PNR 2003 projects on Bioinformatics for Genomics and Proteomics and LIBI-Laboratorio Internazionale di BioInformatica.

  • Input: -

  • Output: -

  • Contact: piero.fariselli@unibo.it

  • Collection: -

  • Maturity: Legacy

Publications

  • Amico M, Finelli M, Rossi I, Zauli A, Elofsson A, Viklund H, von Heijne G, Jones D, Krogh A, Fariselli P, Luigi Martelli P, Casadio R. PONGO: a web server for multiple predictions of all-alpha transmembrane proteins. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W169-72. doi: 10.1093/nar/gkl208. PMID: 16844984; PMCID: PMC1538841.
  • https://doi.org/10.1093/nar/gkl208
  • PMID: 16844984
  • PMC: PMC1538841

Download and documentation

    Currently not available or not maintained.

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