Dear all,
I would like to kindly ask to help me answer on this question.
As far as I understand, for secondary structure it would be:
- canonical base pairing
while for tertiary structure it would be:
- base stacking
- non canonical base pairing
But it seems that the list is incomplete.
Could you tell me please what I am missing?
Thank you for any input,
Best regards,
Aliaksei
Different types of ions could induce various secondary structures (e.g., DNA 4G quadruplex). pH can also affect the structure by introducing or eliminating hydrogen bonds. The solvent itself and ionic strength can play a factor as well.
Additionally, proteins can bind nucleic acids and change their conformation, e.g. transcription factors, enzymes. Some compounds can intercalate between the base pairs (EtBr, for example) and change the torsion of a DNA helix.
Best,
Roy
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