Dear Modeller Caretaker,

am modeling a homo trimer, from a homo trimer template,
each chain(A,B,C) in both template and query has 390 residues,
no gaps in the sequence alignment, and sequence identity is 64%,
but when the model is built , all the three chains in the models
are not having same secondary structural in certain parts,
eg:  residues 15-24 is a strand in A chain and B chain but it is a coil in C chain.
Is there a way to preserve the secondary structure in all the chains of the models?
and  why does this change of secondary structure happens?
There are no such secondary structure variations as far as
the template chains are concerned.

thanks
prabhakar