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Table 6 RMSD and correlation coefficients (r) between experimental and calculated values obtained averaging over different time intervals, using the MM/GBSA(+ HB) model.

From: Identification of DNA-binding protein target sequences by physical effective energy functions: free energy analysis of lambda repressor-DNA complexes.

 

MM/GBSA+(HB)

 

rmsd

r

0.0–0.5 ns

0.993

0.534

0.5–1.0 ns

1.126

0.284

0.0–1.0 ns

1.098

0.356