A DNA tripler is formed when pyrimidine or purine bases occupy the maj
or groove of the DNA double Helix forming Hoogsteen pairs with purines
of the Watson-Crick basepairs. Intermolecular triplexes are formed be
tween tripler forming oligonucleotides (TFO) and target sequences on d
uplex DNA. Intramolecular triplexes are the major elements of H-DNAs,
unusual DNA structures, which are formed in homopurine-homopyrimidine
regions of supercoiled DNAs. TFOs are promising gene-drugs, which can
be used in an anti-gene strategy, that attempt to modulate gene activi
ty in vivo. Numerous chemical modifications of TFO are known. In pepti
de nucleic acid (PNA), the sugar-phosphate backbone is replaced with a
protein-like backbone. PNAs form P-loops while interacting with duple
x DNA forming tripler with one of DNA strands leaving the other strand
displaced. Very unusual recombination or parallel triplexes, or R-DNA
, have been assumed to form under RecA protein in the course of homolo
gous recombination.