#
Free Energy Change at 37 °C

Folding free energy changes for Watson-Crick helices are predicted using the equation:

ΔG°_{37 Watson-Crick} = ΔG°_{37
intermolecular initiation } + ΔG°_{37 AU end penalty }(per AU
end)_{ } + ΔG°_{37 symmetry} (self-complementary duplexes)
+ Σ[ΔG°_{37
stacking}]

where intermolecular initiation is applied for bimolecular structure formation, the AU end penalty is applied once per each AU pair at the end of a helix, the symmetry correction is applied to self-complementary duplexes, and the stacking term is a sum of sequence-dependent parameters over all base pair stacks. For helices of P uninterrupted basepairs, there are P-1 stacks of pairs.

# Tables

The table of parameters is available as plain text (including GU pairs; see the GU section for special cases for 5'GGUC/3'CUGG and 5' GG/3'UU motifs) or html.

# References

A list of references is here.