[AMBER] How to study protein-protein complex are stabilized/destabilized upon complexation?

From: Catein Catherine <askamber23.hotmail.com>
Date: Wed, 15 Dec 2010 01:26:25 +0800

Dear Sir/Madam,
I am trying to study a protein-protein complex using amber. I want to examine if the binding between protein-protein could stabilize or destabilze the whole complex.
I have calculate the MM-GBSA binding energy, I have also calculate the b-factor rmsf of the protein individually and in their complex form.
I got the binding energy is ~ negative 100 kcal/mol. I also found the rmsf, I found the individual rmsf was reduced from 600 to 300.
Can I define the protein-protein complex stabilized? Should I use any other additional approaches to proof that protein-protein complexes are indeed stabilized upon complexation?
Best regards,
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Received on Tue Dec 14 2010 - 09:30:03 PST
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