Study on RNA structure by pyrene-labeled 2'-O-methyloligoribonucleotides.
Properties of 2'-O-methyloligoribonucleotides containing 2'-O-(1-pyrenylmethyl)uridine were investigated as the fluorescent probe to search the single strand regions on RNA secondary and tertiary structure. The pyrene-labeled 2'-O-methyloligoribonucleotide (OMUpy) showed remarkable increase of fluorescence intensity to 333-fold at 375 nm when hybridized with the complementary oligoribonucleotide. When OMUpy, complementary to loop or stem regions, was applied to E. coli 5S-rRNA, the fluorescence intensities were increased in a sequence specific manner. The difference of the fluorescence intensities corresponds to the higher-order structure of 5S-rRNA, suggesting that pyrene-labled 2'-O-methyloligoribonucleotide can be applicable to search single strand regions of RNA.
Iwase
R
R
Department of Polymer Science and Engineering, Kyoto Institute of Technology, Japan.
Mahara
A
A
Yamana
K
K
Yamaoka
T
T
Murakami
A
A
D001483:Base Sequence; D004926:Escherichia coli; D005456:Fluorescent Dyes; D009690:Nucleic Acid Conformation; D009843:Oligoribonucleotides / Q000138:chemical synthesis / Q000737:chemistry*; D011721:Pyrenes; D012313:RNA / Q000737:chemistry*; D012341:RNA, Ribosomal, 5S / Q000737:chemistry*; D013050:Spectrometry, Fluorescence
D005456:Fluorescent Dyes; D009843:Oligoribonucleotides; D011721:Pyrenes; D012341:RNA, Ribosomal, 5S; D012313:RNA; C030984:pyrene