Re: [ccp4bb]: Off topic: structure-based sequence alignments

[Petrus Hendrik Zwart <Zwart@embl-hamburg.de>]

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what about Dali?

http://www.ebi.ac.uk/dali/

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P.H. Zwart
European Molecular Biology Laboratory c/o DESY
Notkestrasse n. 85
D-22603 Hamburg
Germany

e-mail: Zwart@embl-hamburg.de
tel:    ++49-40-89902112
fax:    ++49-40-89902149                      
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"I am tired of this thing called science... we have spent millions on this
sort of thing for the last few years and it is time it should be stopped."

- US senator Simon Cameron, 1901

> > Dear all,
> >
> > sorry for this non-CCP4 question:
> >
> > We have a bunch of structures that have similar folds but that are not very
> > sequence-related (< 20% identity). We would nevertheless like to present a
> > multiple sequence alignment based on overlaid secondary structure elements.
> >
> > Is there a tool that could help us doing this and that has an output format
> > readable by other programs, e.g. msf, pir or what have you ??? It should be
> > multiple sequences, remember.
> >
> >
> > Thanks for a quick hint,
> >