Hi Jason,
While it's not quite what you described, I'd recommend you check out the
Secondary Structure Matching server at the EBI:
http://www.ebi.ac.uk/msd-srv/ssm/ssmstart.html
That will (hopefully!) give you previously deposited structures which share a
similar fold to your query pdb file.
Hope this helps,
Isaac
> I am looking for software or a server to run the 3D-1D profile search
> in reverse: that is I have a new structure (not in yet deposited in
> PDB) and I want to see what sequences might fit well to this 3D
> structure.
> Can someone point me in the right direction?
>
> -jason
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