Both MUSTANG and MATT are good choices: http://www.cs.mu.oz.au/~arun/mustang/
http://groups.csail.mit.edu/cb/matt/ On Jan 12, 2010, at 7:17 AM, Ronnie Berntsson wrote: > Dear all, > > A bit off the topic question perhaps. > I am trying to find a program which can do multiple structural sequence > alignments. What I would like is a program which can take as input PDB codes > (or files), and which will output a multiple sequence alignment in FASTA > format with the full sequences of the supplied proteins intact. Preferably > said server/program should be able to handle at least 20 input pdbs at once. > I've been looking around, but have so far failed to find a program which does > this. If anyone knows of a program or server which could handle this, I would > be very grateful. > > Cheers, > Ronnie Berntsson
