Ribozyme-catalysed carbon-carbon bond formation

Jäschke, Andres; Stuhlmann, Friedrich; Bebenroth, Dirk; Keiper, Sonja; Wombacher, Richard

doi:10.1042/bst0301137

Cited by 3 publications

(1 citation statement)

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“…However, the technology to find non-natural ribozymes using in vitro selection methods 6,7 allowed the scope of ribozyme catalysis to be expanded to include many new capabilities, thus adding further support to the existence of the RNA world 8 -12 and supplying valuable catalysts. [13][14][15][16][17][18][19][20][21][22] The focus of this article, however, is the mechanisms of in vitro selected ribozymes, of which only a few have been studied in detail. The magnitude of the problems associated with mechanis-tic studies on ribozymes can be exemplified by the case of the naturally occurring Group I intron, which even after two decades of studies remains enigmatic.…”

Section: Introductionmentioning

confidence: 99%

Mechanistic studies on acyl‐transferase ribozymes and beyond

Hodgson

Suga

2003

Biopolymers

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In vitro selection has allowed the isolation of many new ribozymes that are able to catalyze an ever-widening array of chemical transformations. Mechanistic studies on these selected ribozymes have provided valuable insight into the methods that RNA can invoke to overcome different catalytic tasks. We focus on the methods employed in these mechanistic studies using the acyl-transferase family of selected ribozymes as well-studied reference systems. Chemical and biochemical techniques have been used in tandem in order to draw conclusions on the various modes of catalysis employed by the different family members. In turn, this type of mechanistic information may provide a means for the redesign and optimization of existing ribozymes or the basis for new selection systems for more powerful RNA catalysts.

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Section: Introductionmentioning

confidence: 99%

Mechanistic studies on acyl‐transferase ribozymes and beyond

Hodgson

Suga

2003

Biopolymers

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Aptamer to Ribozyme: The Intrinsic Catalytic Potential of a Small RNA

Brackett

Dieckmann

2006

ChemBioChem

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The discovery of RNA-based catalysis 23 years ago dramatically changed the way biologists and biochemists thought of RNA. In the recent past, several ribozymes structures have provided some answers as to how catalysis is accomplished and how it relates to RNA structure and folding. However, there is still little information as to how catalytic activity evolved. Here we show that the small malachite green-binding aptamer has intrinsic catalytic potential that can be realized by designing the proper substrate. The charge distribution within the RNA binding pocket stabilizes the transition state of an ester hydrolysis reaction and thus accelerates the overall reaction. The results suggest that electrostatic forces can contribute significantly to RNA-based catalysis. Moreover, even simple RNA structures that have not been selected for catalytic properties can have a basic catalytic potential if they encounter the right substrate. This provides a possible starting point for the molecular evolution of more complex ribozymes.

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NMR spectroscopy of ribonucleic acids

Flinders

Dieckmann

2006

Progress in Nuclear Magnetic Resonance Spectroscopy

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Ribozyme-catalysed carbon-carbon bond formation

Cited by 3 publications

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Mechanistic studies on acyl‐transferase ribozymes and beyond

Mechanistic studies on acyl‐transferase ribozymes and beyond

Aptamer to Ribozyme: The Intrinsic Catalytic Potential of a Small RNA

NMR spectroscopy of ribonucleic acids

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