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Turner 2004

GU Pairs

Example

 

 

Example Structure        

∆G°37 = ∆G°37 intermolecular initiation + ∆G°37 GU end penalty + ∆G°37(GC followed by GU, followed by UG, followed by GC) + ∆G°37(CG followed by GU) + ∆G°37(GU followed by UG) + ∆G°37(UG followed by GC) + ∆G°37(GC followed by UG)

 

∆G°37 = 4.09 kcal/mol + 0.45 kcal/mol – 4.12 kcal/mol –1.41 kcal/mol + 1.29 kcal/mol – 1.41 kcal/mol – 2.51 kcal/mol

 

∆G°37 = –3.62 kcal/mol

 

∆H° = ∆H°intermolecular initiation + ∆H°GU end penalty+ ∆H°(GC followed by GU, followed by UG, followed by GC) + ∆H°(CG followed by GU) + ∆H°(GU followed by UG) + ∆H°(UG followed by GC) + ∆H°(GC followed by UG)

 

∆H° = 3.61 kcal/mol + 3.72 kcal/mol – 30.80 kcal/mol – 5.61 kcal/mol – 14.59 kcal/mol – 5.61 kcal/mol – 12.59 kcal/mol

 

∆H° = –61.87 kcal/mol

 

 

 

Note that this example shows the stack of GU followed by UG in two different contexts, including the stabilizing context and the destabilizing context. In the stabilizing context, a single parameter is used for three consecutive basepair stacks.