From: Sibel Cakan (
Date: Mon Jan 03 2011 - 04:15:23 CST

Dear all
Iím trying to run a residue-based CG MD simulation with NAMD for a system which includes waters, proteins, and a lipid bilayer.During the MD simulation I had several problems and I had checked this page and the mailing list which reccomends to do heating protocol.So I tried the heating protocol and assign the temperature from 30 to 323 K.But in the log file the temperature could not reach the 323K(the temperature was ~270-280) and the simulation gives error that 'Atoms moving too fast' .
Could somebody help me out? Thanks a lot.