In ccp4i select "Coordinate utilities/Superpose"
And then on the first menu select "Superpose using secondary structure matching".
It will automatically superpose based on fold rather than atom alignment. (This is the same software as used at the EBI for what used to be called MSDfold).
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 ------------------------------------
