Solution structure of a GAAG tetraloop in helix 6 of SRP RNA from Pyrococcus furiosus.
The NMR structure of a 12-mer RNA derived from the helix 6 of SRP RNA from Pyrococcus furiosus, whose loop-closing base pair is U.G, was determined, and the structural and thermodynamic properties of the RNA were compared with those of a mutant RNA with the C:G closing base pair. Although the structures of the two RNAs are similar to each other and adopt the GNRR motif the conformational stabilities are significantly different to each other It was suggested that weaker stacking interaction of the GAAG loop with the U:G closing base pair in 12-mer RNA causes the lower conformational stability.
Okada
Kiyoshi
K
Department of Life and Environmental Sciences, Faculty of Engineering, Chiba Institute of Technology, Chiba, Japan.
Takahashi
Mari
M
Sakamoto
Taiichi
T
Kawai
Gota
G
Nakamura
Kouji
K
Kanai
Akio
A
D001483:Base Sequence; D008969:Molecular Sequence Data; D019906:Nuclear Magnetic Resonance, Biomolecular; D009690:Nucleic Acid Conformation; D009841:Oligonucleotides / Q000737:chemistry; D020027:Pyrococcus furiosus / Q000235:genetics*; D020871:RNA Stability; D012329:RNA, Bacterial / Q000737:chemistry* / Q000235:genetics*; D018271:Signal Recognition Particle / Q000235:genetics*; D013816:Thermodynamics
D009841:Oligonucleotides; D012329:RNA, Bacterial; D018271:Signal Recognition Particle