protein folding

From: doty alexiou (doty_alexiou_at_hotmail.com)
Date: Fri Jul 10 2009 - 03:00:37 CDT

 Hi.I am running an NAMD simulation of a protein(folding process) using the extended martini foce field.The simulation has run about 70-80 ns(323 k,timestep 10,PBC,in water,RMSD is about 18 till now).Up until now,there is no sign of the expected secondary structure of the protein.Is there any suggestion about what could be wrong or if i should expect it longer?Thank u.

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