DFT optimized structure of ADE(w):CYT(w) Cis base pair


Intra-basepair Parameters

Buckle(°)-4.42
Open angle(°)13.55
Propeller (°)-4.84
Stagger (Å)-0.01
Shear (Å)2.60
Stretch (Å)2.70

Basepair Geometry

C1'-C1' Distance(Å)10.73
C6-C8 Distance (Å)10.5
Opening (°)5.79
Glycosidic angle- 1 (°)72.48
Glycosidic angle- 2 (°)48.47

Quantum Chemical interaction energy =- 6.28 Kcal/mol

(Ref: Roy et al., J.Phy.Chem.B, 2008,112,3786))

Intra-basepair parameters and basepair geometry are calculated by NUPARM.