Hi All,

 

I have two peptide fragments that I want to join with a peptide bond.

So I move the 2nd fragment towards the C terminal of the 1st one and bring the C of 1st and N of 2nd manually closer such that the distance is 1.34 A. I combine the two PDB files into one and I have a peptide I want but in the process of bringing them closer, the angles around the peptide bond CA-C-O and C-O-N are not what they should be?

My question is - is there a way to fix these angles while I am fixing the distance?

What is the right way to join fragments in a peptide bond? Is there a cleaner way?

 

Thank you.

Appreciate your help.

Sujata