Rescue of abasic hammerhead ribozymes by exogenous addition of specific bases.
We have synthesized 13 hammerhead ribozyme variants, each containing an abasic residue at a specific position of the catalytic core. The activity of each of the variants is significantly reduced. In four cases, however, activity can be rescued by exogenous addition of the missing base. For one variant, the rescue is 300-fold; for another, the rescue is to the wild-type level. This latter abasic variant (G10.1X) has been characterized in detail. Activation is specific for guanine, the base initially removed. In addition, the specificity for guanine versus adenine is substantially altered by replacing C with U in the opposite strand of the ribozyme. These results show that a binding site for a small, noncharged ligand can be created in a preexisting ribozyme structure. This has implications for structure-function analysis of RNA, and leads to speculations about evolution in an "RNA world" and about the potential therapeutic use of ribozymes.
Peracchi
A
A
Department of Biochemistry, Stanford University, CA 94305-5307, USA.
Beigelman
L
L
Usman
N
N
Herschlag
D
D
D015075:2-Aminopurine; D001482:Base Composition; D001483:Base Sequence; D006147:Guanine; D019271:Hypoxanthine; D007202:Indicators and Reagents; D007700:Kinetics; D009690:Nucleic Acid Conformation; D009843:Oligoribonucleotides / Q000138:chemical synthesis / Q000737:chemistry*; D016337:RNA, Catalytic / Q000138:chemical synthesis / Q000737:chemistry* / Q000378:metabolism*
D007202:Indicators and Reagents; D009843:Oligoribonucleotides; D016337:RNA, Catalytic; D019271:Hypoxanthine; D015075:2-Aminopurine; D006147:Guanine