Table 10 Binding free energy calculations of top drug candidate against RdRp DENV-2 by MM/PBSA method.

From: Repurposing FDA-approved drugs and natural compounds to inhibit the RNA-dependent RNA polymerase domain of dengue virus 2 or dengue virus 3

Compound

Electrostatic

Van der Waals

INT

GAS

PBSUR

PBCAL

PBSOL

PBELE

Total binding energy

Chlortalidone

0

− 29.48

0.02

− 29.46

− 4.06

17.54

13.48

17.54

− 15.98

Clofazimine

0

− 41.83

0.03

− 41.8

− 6.78

23

16.22

23

− 25.58

Lumacaftor

0

− 40.41

0.06

− 40.35

− 5.97

22.59

16.62

22.59

− 23.73

Valdecoxib

0

− 24.51

0.04

− 24.47

− 4.32

9.34

5.02

9.34

− 19.45

ZINC01532028

0

− 38.63

0

− 38.63

− 5.37

24.12

18.74

24.12

− 19.89

ZINC01619649

0

− 37.38

0.04

− 37.33

− 4.49

18.97

14.48

18.97

− 22.86

ZINC13378516

0

− 41.43

0

− 41.43

− 5.15

20.71

15.56

20.71

− 25.87

ZINC14824819

0

− 52.57

0

− 52.57

− 5.75

32.39

26.64

32.39

− 25.93

ZINC95913991

0

− 28

0

− 28

− 4.08

15.05

10.97

15.05

− 17.03

  1. GAS: Total gas phase energy.
  2. INT = internal energy arising from bond, angle, and dihedral terms in the MM force field.
  3. PBSUR /GB: Nonpolar contribution to the solvation free energy.
  4. PBCAL/GB = the electrostatic contribution to the solvation free energy.
  5. PBSOL/GBSOL = sum of non-polar and polar contributions to solvation.
  6. PBELE/GBELE = sum of the electrostatic solvation free energy and MM electrostatic energy.