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

[Charlie Bond <C.S.Bond@dundee.ac.uk>]

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Hi Wulf,

Wulf Blankenfeldt wrote:

> 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.


Does TOPP do what you want? (CCP4 program)


Cheers,
Charlie
-- 
Dr Charles S. Bond            MSI/WTB Complex    Tel: +44-1382-348325
BBSRC David Phillips Fellow   Dow St.  Dundee    Fax: +44-1382-345764
School of Life Sciences       DD1 5EH Scotland  C.S.Bond@dundee.ac.uk
University of Dundee         http://stein.bioch.dundee.ac.uk/~charlie