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  • Web report
  • Open Access

Topology prediction of membrane proteins

Genome Biology20001:reports224

https://doi.org/10.1186/gb-2000-1-1-reports224

  • Received: 18 November 1999
  • Published:

Abstract

The TopPred 2 server predicts the orientation and location of transmembrane helices in protein sequences.

Keywords

  • Protein Sequence
  • Transmembrane Helix
  • Transmembrane Region
  • Secondary Structure Prediction
  • Macintosh Computer

Content

The TopPred 2 server predicts the orientation and location of transmembrane helices in protein sequences. The output of the server includes a GIF graphic of the predicted topology, a summary table of the predicted transmembrane helixes, and then a series of tabular descriptions of the best predicted structures.

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Reporter's comments

Timeliness

Last updated 5 November 1997.

Best feature

The graphic produced by TopPred 2 is one of the nicer images produced by transmembrane domain prediction servers.

Worst feature

There is no documentation on the website. In order to understand what everything means, you have get the original journal article describing the software.

Wish list

Instead of just specifying the position of the putative transmembrane domains with numbers, it would be useful to have, in addition, the protein sequence of the predicted helix. This makes it easier for the researcher to annotate that region in the protein sequence.

Related websites

There are a number of sites that offer transmembrane domain prediction including TMHMM: predication of transmembrane helices in proteins; Tmpred: prediction of transmembrane regions and orientation; HMMTOP: predication of transmembrane helices and topology of proteins; SOSUI: Classification and secondary structure prediction of membrane proteins.

Table of links

References

Copyright

© BioMed Central Ltd 2000

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