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. Author manuscript; available in PMC: 2009 Jan 28.
Published in final edited form as: J Chem Theory Comput. 2008 Oct 14;4(10):1669–1680. doi: 10.1021/ct8002173

Figure 1.

Figure 1

Residual accelerations on atoms observed in Langevin dynamics. Langevin forces on individual atoms were summed over steps of a molecular dynamics run of the Trp-Cage miniprotein using collision frequency 3 ps−1 and a bath temperature of 298 K. Averaging the forces over N previous steps gives a value for the residual force on that atom, a quantity which tends to zero as 1/√N. Residual forces on each atom were normalized by the atom’s mass to give accelerations. The black line shows average residual acceleration for all atoms; circles show the values expected from eq 5.