Dear all,
I notice that Amber 12 include a new force field lipid 11 for membrane protein modeling.
I want to do modeling for a membrane system. I have got through the tutorial on the amber website but I still have some questions.
Is there any general protocol to do the initial minimization and relax, as well as produce modeling for a membrane protein system?
Could anyone provide some articles using amber as tool to do membrane protein modeling?
Despite of energy items and rmsd of protein, what other parameters, especially those parameters related to lipid bilayer should be monitored during the simulation?
Thanks a lot.
Best,
Ren
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Received on Sun Mar 24 2013 - 17:00:03 PDT
