If you just run SSM with the two files I think you will get the alignment you want? It seems to be able to sort out subunits from a whole model.
Eleanor Paul Emsley wrote: > conancao wrote: > >> Dear all: >> >> I have problem to supperimpose 2 homologous proteins(only one subunit >> is homologous) in coot.Could anybody give suggestion either using coot >> or other easily availabe software to superimpose homologous >> structures(pdb) and give a finial superimposed pdb or picture. Thank you. >> > > See subsection 4.20 Secondary Structure Matching (SSM) > <http://www.ysbl.york.ac.uk/%7Eemsley/coot/doc/chapters/user-manual_4.html#SEC86> > of the Coot User Manual. > > http://www.ysbl.york.ac.uk/~emsley/coot/doc/chapters/user-manual_4.html#SEC86 > > Paul. > > >
