protein sequence

This server is for prediction of transmembrane topology and signal peptides from the amino acid sequence of a protein.

NetGlycate predicts glycation of Epsilon amino groups of lysines in mammalian proteins. The method
is described in detail in the following article:

Analysis and prediction of mammalian protein glycation.
Morten Bo Johansen, Lars Kiemer and Soren Brunak
Glycobiology, 16:844-853, 2006.

Alongside this Web Service the NetGlycate method is also implemented as
an interactive WWW server at:
http://www.cbs.dtu.dk/services/NetGlycate/

The PRODIV-TMHMM webserver actually consists of four separate topology predictors.
PRODIV-TMHMM, PRO-TMHMM and S-TMHMM are hidden Markov model based servers for topology prediction of transmembrane proteins. Details of the programs are described in:

Best alpha-helical transmembrane protein topology predictions are achieved using hidden Markov models and evolutionary information, Håkan Viklund and Arne Elofsson, Protein Science Vol. Protein Sci. 2004 Jul;13(7):1908-17

The ProteinALIGNment (Palign) programs are a set of programs for sequence searches. They can perform standard dynamic programming, heuristic fasta like searches and profile-profile alignments. Palign can be used for many type of alignment problems and can:

1. Align two sequences and search a database with a sequence
2. Align a sequence and a profile
3. Include and combine secondary structure information into the alignments
4. Read sequences, profiles etc in many formats
5. Perform profile-profile searches/alignments using different algorithms