Dear Amber users,
I have a homology based model for homodimeric protein. For the template homodimer the native dimeric state is known and for modelled protein native monomeric state is known.
I've made a 2 nanosecod GB run for the modelled homodimeric protein but there seems to be no significant monomerization.
Maybe I need to use longer simulation periods with explicit water models to get monomerization? What times and conditions do you suggest?
Each monomer is about 120 amino acids.
Best regards,
Andrew
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Fri Feb 20 2009 - 01:07:22 PST
