From: Aditya Padhi (
Date: Tue Feb 04 2014 - 23:12:10 CST

Dear All,
        I want to place a protein molecule (appx. 20 kDa in size) into a
viral capsid loop region which is about 7 amino acid long. What I want to
do is to remove the 5 amino acids out from the loop region and place the 20
kDa protein, so that the loop region can accommodate the 20 kDa protein. I
am finding it difficult as the co-ordinates of both the molecules are

Although, this is not related to MD simulation or associated stuff, it
would be grateful if I can get some suggestions.

Thanking you,