Dear all,
Thanks a lot for all the replies and suggestions. I'm currently busy trying out a few of the options, and I'll try to post a brief summary after I've finished the analysis.
Cheers,
Ronnie
On Jan 15, 2010, at 09:12, [log in to unmask] wrote:
> Dear Ronnie,
>
> have you tried the java program 'indonesia' which also contains a 3D-alignment/sequence comparison tool:
>
> http://xray.bmc.uu.se/dennis/
>
> Best regards,
> Bart
>
> 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
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