To monitor the stability of the six simulated systems, the individual capsid, intNS3, 2A/2B, 4/B5, 3/4A and 2B/3 binding to DV2 NS2B/NS3pro, the RMSD of the structures obtained during the 20-ns MDS relative to the initial structure for all heavy atoms in the complex and the 10 substrate residues (P5–P5′) were evaluated and plotted