Parameter

ΔG°37
(kcal/mol)

Symmetrically Equivalent Parameter

5'AG3'
3'UU5'

-0.55 ± 0.32

5'UU3'
3'GA5'

5'AU3'
3'UG5'

-1.36 ± 0.24

5'GU3'
3'UA5'

5'CG3'
3'GU5'

-1.41 ± 0.24

5'UG3'
3'GC5'

5'CU3'
3'GG5'

-2.11 ± 0.25

5'GG3'
3'UC5'

5'GG3'
3'CU5'

-1.53 ± 0.27

5'UC3'
3'GG5'

5'GU3'
3'CG5'

-2.51 ± 0.25

5'GC3'
3'UG5'

5'GA3'
3'UU5'

-1.27 ± 0.28

5'UU3'
3'AG5'

5'GG3'
3'UU5'

+0.47 ± 0.96
(-0.5) (note a)

5'UU3'
3'GG5'

5'GU3'
3'UG5' (note b)

+1.29 ± 0.56

 

5'GGUC3'
3'CUGG5' (note b)

-4.12 ± 0.54

5'GGUC3'
3'CUGG5'

5'UG3'
3'AU5'

-1.00 ± 0.30

5'UA3'
3'GU5'

5'UG3'
3'GU5'

+0.30 ± 0.48

 

Per GU end

+0.45 ± 0.04

 

Notes:

a: Although the free energy change parameter for GU followed by GU fit to +0.47 kcal/mol, there is a large error and this parameter is set to -0.5 kcal/mol for secondary structure prediction to optimize accuracy.

b: GU followed by UG is generally unfavorable (+0.47 kcal/mol), but is favorable in the one context shown (GC preceding pair and CG following pair). For the favorable case, the single reported parameter (-4.12 kcal/mol) is used for the total of three stacks.