parm 6uva.pdb
parm average.pdb 
trajin 6uva.pdb parmindex 0
reference average.pdb [ref] parmindex 1 
readdata evecs.dat name myEvecs
#strip !:1-111,121-188,189-214,216-249@CA  #7knt
strip !:1-111,121-188,193-218,221-254@CA
rms reference ref 
projection modes myEvecs out project_6uva.dat beg 1 end 3 @CA
run