Minimum-energy path for a u6 RNA conformational change involving protonation, base-pair rearrangement and base flipping.

@article{Venditti2009MinimumenergyPF,
  title={Minimum-energy path for a u6 RNA conformational change involving protonation, base-pair rearrangement and base flipping.},
  author={Vincenzo Venditti and Lawrence J. Clos and Neri Niccolai and Samuel E Butcher},
  journal={Journal of molecular biology},
  year={2009},
  volume={391 5},
  pages={894-905}
}
The U6 RNA internal stem-loop (U6 ISL) is a highly conserved domain of the spliceosome that is important for pre-mRNA splicing. The U6 ISL contains an internal loop that is in equilibrium between two conformations controlled by the protonation state of an adenine (pK(a)=6.5). Lower pH favors formation of a protonated C-A(+) wobble pair and base flipping of… CONTINUE READING