DFT optimized structure of model ADE(W):ADE(S) Cis basepair


Intra-basepair Parameters

Buckle(°)-18.29
Open angle(°)-26.14
Propeller (°)-46.70
Stagger (Å)-0.21
Shear (Å)-2.49
Stretch (Å)3.40

Basepair Geometry

C1'-C1' Distance(Å)9.4
C6-C8 Distance (Å)10.2
Opening (°)31.74
Glycosidic angle- 1 (°)31.7
Glycosidic angle- 2 (°)116.86

Quantum Chemical interaction energy = -14.76 Kcal/mol

(Ref: Panigrahi et. al, J. Biomol Struct. Dyn.,29,3,2011)

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