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PISA will do that - an EBI service or available less prettily from ccp4i
Eleanot

Miri Hirshberg wrote:
> Sun., Jan. 17th 2010
> EBI
> 
> Greetings,
> 
> I am looking for a 3D structure superposition program which takes
> two structures and superpose them based only on the coordinates X,Y,Z
> regardless of of residue/atoms name.
> 
> (both files are in PDB format)
> 
> Thanks
> Miri
> 
> ------------------------------------
> Dr Miri Hirshberg
> European Bioinformatics Institute UK
> PDBe - EBI -EMBL
> http://www.ebi.ac.uk/pdbe
> 
> Phone: +44 (0) 1223 492647
> FAX:   +44 (0) 1223 494468
> ------------------------------------