- Web report
- Open Access
Analysis of protein sequences
- Mar Albà
© BioMed Central Ltd 2000
- Received: 23 November 1999
- Published: 17 March 2000
Several programs to predict sequence and structural features of a protein can be run simultaneously on the PredictProtein server.
- Protein Domain
- Blast Search
- Multiple Alignment
- Homologous Protein
- Transmembrane Helix
Several programs to predict sequence and structural features of a protein can be run simultaneously on the PredictProtein server. The programs have been contributed by various authors. MaxHom is a program that searches databases for homologous proteins using BLAST and performs a multiple alignment of the most closely related proteins. Homology to known protein domains is investigated by running searches against ProSite and ProDom. PHDsec and PHDacc are used to predict secondary structure and solvent accessibility, respectively. Other structural characteristics that can be investigated are globularity (Globe), transmembrane helices (PHDhtm), coiled-coil regions (Coils) and fold (Topits).
It was not clear when the site was last updated, but the SWISS-PROT version used to do BLAST searches was up to date (release 38.0, July 1999).
Different characteristics of a protein can be investigated in a matter of minutes. A very useful feature is the construction of multiple alignment from BLAST hits by MaxHom.
The output options are not well organized so it is not always clear which programs are running.
It would be useful to be able to get the results directly from the web browser, instead of their being sent by e-mail. Also, the service would improve by adding other databases, besides SWISS-PROT, to perform BLAST searches.
More on protein prediction can be found at Expasy and the Protein sequence analysis protein structure prediction server.