parm models/pth1r_1632_rec1_8c5ee_0.pdb 
trajin models/pth1r_1632_rec1_8c5ee_?.pdb
trajin models/pth1r_1632_rec1_8c5ee_??.pdb
trajin models/pth1r_3264_rec1_8c5ee_?.pdb
trajin models/pth1r_3264_rec1_8c5ee_??.pdb
trajin models/pth1r_64128_rec1_8c5ee_?.pdb
trajin models/pth1r_64128_rec1_8c5ee_??.pdb
trajin models/pth1r_128256_rec1_8c5ee_?.pdb
trajin models/pth1r_128256_rec1_8c5ee_??.pdb
trajin models/pth1r_256512_rec1_8c5ee_?.pdb
trajin models/pth1r_256512_rec1_8c5ee_??.pdb
trajin models/pth1r_5121024_rec1_8c5ee_?.pdb
trajin models/pth1r_5121024_rec1_8c5ee_??.pdb
trajin models/pth1r_5125120_rec1_8c5ee_?.pdb
trajin models/pth1r_5125120_rec1_8c5ee_??.pdb
autoimage
rms    :44-68,106-170,190-213,233-249,260-286@CA
strip  !:44-68,106-170,190-213,233-249,260-286@CA
average crdset trjavg 
average average.pdb pdb
createcrd CRD1
run
crdaction CRD1 rms ref trjavg
crdaction CRD1 matrix covar name matcov @CA
runanalysis diagmatrix matcov out evecs.dat  vecs 156 name myEvecs 
runanalysis modes eigenval name myEvecs out %eigenvec.dat
crdaction CRD1 projection PCS modes myEvecs out project.dat beg 1 end 3 @CA
hist PCS:1 bins 1000  out hist.agr norm name PC-1
hist PCS:2 bins 1000  out hist.agr norm name PC-2
hist PCS:3 bins 1000  out hist.agr norm name PC-3
run