Parameter

ΔG°37
(kcal/mol)

ΔH°
(kcal/mol)

Symmetrically Equivalent Parameter

5'AG3'
3'UU5'

–0.55 ± 0.32

–3.21 ± 2.76

5'UU3'
3'GA5'

5'AU3'
3'UG5'

–1.36 ± 0.24

–8.81 ± 2.10

5'GU3'
3'UA5'

5'CG3'
3'GU5'

–1.41 ± 0.24

–5.61 ± 2.13

5'UG3'
3'GC5'

5'CU3'
3'GG5'

–2.11 ± 0.25

–12.11 ± 2.22

5'GG3'
3'UC5'

5'GG3'
3'CU5'

–1.53 ± 0.27

–8.33 ± 2.33

5'UC3'
3'GG5'

5'GU3'
3'CG5'

–2.51 ± 0.25

–12.59 ± 2.18

5'GC3'
3'UG5'

5'GA3'
3'UU5'

–1.27 ± 0.28

–12.83 ± 2.44

5'UU3'
3'AG5'

5'GG3'
3'UU5'

+0.47 ± 0.96
(–0.5) (note a)

–13.47 ± 8.37

5'UU3'
3'GG5'

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

+1.29 ± 0.56

–14.59 ± 4.92

 

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

–4.12 ± 0.54

–30.80 ± 8.87

5'GGUC3'
3'CUGG5'

5'UG3'
3'AU5'

–1.00 ± 0.30

–6.99 ± 2.64

5'UA3'
3'GU5'

5'UG3'
3'GU5'

+0.30 ± 0.48

–9.26 ± 4.19

 

Per GU end

+0.45 ± 0.04

3.72 ± 0.83

 

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.