Combining nucleoside analogues to achieve recognition of oligopurine tracts by triplex-forming oligonucleotides at physiological pH.
We have used DNase I footprinting to examine DNA triple helix formation at a 12 base pair oligopurine.oligopyrimidine sequence, using oligonucleotides that contain combinations of 2'-aminoethoxy-5-(3-aminoprop-1-ynyl)uridine (bis-amino-U, BAU) and 3-methyl-2-aminopyridine (MeP) in place of T and C, respectively. This combination acts cooperatively to enable high affinity triple helix formation at physiological pH. The affinity depends on the number of substitutions and their arrangement; oligonucleotides in which these analogues are evenly distributed throughout the third strand bind much better than those in which they are clustered together.
Rusling
David A
DA
School of Biological Sciences, University of Southampton, Bassett Crescent East, Southampton SO16 7PX, UK.
Le Strat
Loic
L
Powers
Vicki E C
VE
Broughton-Head
Victoria J
VJ
Booth
James
J
Lack
Oliver
O
Brown
Tom
T
Fox
Keith R
KR
D000631:Aminopyridines; D001483:Base Sequence; D004247:DNA / Q000737:chemistry*; D018983:DNA Footprinting; D003850:Deoxyribonuclease I; D006863:Hydrogen-Ion Concentration; D009690:Nucleic Acid Conformation; D009705:Nucleosides / Q000737:chemistry*; D009841:Oligonucleotides / Q000737:chemistry*; D011687:Purines / Q000737:chemistry; D014529:Uridine / Q000031:analogs & derivatives
C488802:2'-aminoethoxy-5-(3-aminoprop-1-ynyl)uridine; D000631:Aminopyridines; D009705:Nucleosides; D009841:Oligonucleotides; D011687:Purines; C051802:triplex DNA; D004247:DNA; D003850:Deoxyribonuclease I; D014529:Uridine