In article <3ovp6q$fkp at cisunix1.dfci.harvard.edu>, Matthew Frosch
<frosch at dsg.harvard.edu> wrote:
> Does anyone know of programs (GCG or otherwise) which are useful in
> determining potential membrane spanning regions based on primary
> sequence data?
Most people seem to use the Kyte-Doolittle program/algorithm that
calculates the hydrophobic moment at every residue in a protein. This
calculation reveals hydrophobic regions. You need about 20 consecutive
hydrophobic/uncharged amino acids to form a membrane spanning helical
segment. DNA Star will do this for you. I don't know about other
packages, but the program is fairly standard.