Structural studies of an RNA aptamer containing GGA repeats under ionic conditions using microchip electrophoresis, circular dichroism, and 1D-NMR.
Nuclear magnetic resonance (NMR) studies have shown that RNA/DNA oligomers with GGA repeat sequences contain unique G-quadruplex structures in the presence of K(+) or Na(+) ions. In this study, we used microchip electrophoresis to study the structure of an RNA aptamer against bovine prion protein that possessed four GGA-triplet repeats (wt2). We analyzed the structural changes and characterized dimer formation of the aptamer. Mutational, circular dichroism, and one-dimensional NMR studies of wt2 revealed that K(+) ions induce wt2 to assume a thermostable dimer in an intramolecular G-quadruplex with parallel orientation.
Age Dimension Research Center, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki, Japan.
Fumiko
F
Nishikawa
Kazuyoshi
K
Murakami
Akimasa
A
Matsugami
Masato
M
Katahira
Satoshi
S
Nishikawa
D000225:Adenine / Q000737:chemistry; D000818:Animals; D052157:Aptamers, Nucleotide / Q000737:chemistry* / Q000235:genetics; D001483:Base Sequence; D002417:Cattle; D002942:Circular Dichroism; D046209:Electrophoresis, Microchip; D054856:G-Quadruplexes; D006147:Guanine / Q000737:chemistry; D009682:Magnetic Resonance Spectroscopy; D008969:Molecular Sequence Data; D011328:Prions / Q000037:antagonists & inhibitors* / Q000235:genetics; D012964:Sodium / Q000737:chemistry; D018911:Trinucleotide Repeats
D052157:Aptamers, Nucleotide; D011328:Prions; D006147:Guanine; D012964:Sodium; D000225:Adenine