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Turner 2004

Coaxial Stacking

Example 1

 

 

example structure        

∆G°37 coaxial stack = ∆G°37(Watson-Crick Stack)

 

∆G°37 coaxial stack = ∆G°37(AU pair followed by CG pair)

 

∆G°37 coaxial stack= -2.24 kcal/mol

 

∆H°coaxial stack = ∆H°(Watson-Crick Stack)

 

∆H°coaxial stack = ∆H°(AU pair followed by CG pair)

 

∆H°coaxial stack = –11.40 kcal/mol

 

Note that at this interface, the terminal AU pair penalty would still apply when calculating the helix stability.