Hairpin ribozyme mediated RNA recombination

2016 ◽  
Vol 52 (23) ◽  
pp. 4365-4368 ◽  
Author(s):  
Robert Hieronymus ◽  
Simon Peter Godehard ◽  
Darko Balke ◽  
Sabine Müller
Keyword(s):  
Hammerhead Ribozyme ◽  
Hairpin Ribozyme ◽  
Rna Recombination

An engineered hairpin ribozyme supports the recombination of two non-functional substrates into a functional hammerhead ribozyme.

Engineering of hairpin ribozyme variants for RNA recombination and splicing

2019 ◽  
Vol 1447 (1) ◽  
pp. 135-143 ◽  
Author(s):  
Robert Hieronymus ◽  
Sabine Müller
Keyword(s):  
Hairpin Ribozyme ◽  
Rna Recombination

Sequence elements outside the catalytic core of natural hairpin ribozymes modulate the reactions differentially

2011 ◽  
Vol 392 (7) ◽  
Author(s):  
Preeti Bajaj ◽  
Gerhard Steger ◽  
Christian Hammann
Keyword(s):  
Mutational Analysis ◽  
Hammerhead Ribozyme ◽  
The Other ◽  
Hairpin Ribozyme ◽  
Catalytic Core ◽  
Arabis Mosaic Virus ◽  
Sequence Elements ◽  
Satellite Rnas ◽  
Hairpin Ribozymes

AbstractHairpin ribozymes occur naturally only in the satellite RNAs of tobacco ringspot virus (TRsV), chicory yellow mottle virus (CYMoV) and arabis mosaic virus (ArMV). The catalytic centre of the predominantly studied sTRsV hairpin ribozyme, and of sArMV is organised around a four-way helical junction. We show here that sCYMoV features a five-way helical junction instead. Mutational analysis indicates that the fifth stem does not influence kinetic parameters of the sCYMoV hairpin ribozymein vitroreactions, and therefore seems an appendix to that junction in the other ribozymes. We report further that all three ribozymes feature a three-way helical junction outside the catalytic core in stem A, with Watson-Crick complementarity to loop nucleotides in stem B. Kinetic analyses of cleavage and ligation reactions of several variants of the sTRsV and sCYMoV hairpin ribozymesin vitroshow that the presence of this junction interferes with their reactions, particularly the ligation. We provide evidence that this is not due to a presumed interaction of the afore-mentioned elements in stems A and B. The evolutionary survival of thiscis-inhibiting element seems rather to be caused by the coincidence of its position with that of the hammerhead ribozyme in the other RNA polarity.

Hairpin and hammerhead ribozymes: how different are they?

2002 ◽  
Vol 30 (6) ◽  
pp. 1116-1119 ◽  
Author(s):  
J. M. Burke
Keyword(s):  
Metal Ions ◽  
Conformational Changes ◽  
Experimental Work ◽  
Hammerhead Ribozyme ◽  
Active Conformation ◽  
Hairpin Ribozyme ◽  
Hammerhead Ribozymes ◽  
Active Structure ◽  
Catalytic Function ◽  
Recent Experimental Work

Recent experimental work on the hairpin and hammerhead ribozymes suggests that they have more similarities than previously suspected. Notably, each is now known to function as a true RNA catalyst, not requiring metal ions for folding or catalytic function. The active conformation of the hairpin ribozyme has been established by crystallography, and is well supported by biochemical and biophysical evidence that has identified conformational changes and key nucleotides required for catalysis. Analogous work is under way to establish the active structure of the hammerhead ribozyme.

scholarly journals RNA Back and Forth: Looking Through Ribozyme and Viroid Motifs

2019 ◽  
Author(s):  
Marie-Christine Maurel ◽  
Fabrice Leclerc ◽  
Jacques Vergne ◽  
Giuseppe Zaccai
Keyword(s):  
Rna World ◽  
Hammerhead Ribozyme ◽  
Intramolecular Interactions ◽  
Modern World ◽  
Hairpin Ribozyme ◽  
Living Fossils ◽  
Evolution Of Life ◽  
Catalytically Active ◽  
World Hypothesis ◽  
Rna World Hypothesis

Current cellular facts allow us to follow the link from chemical to biochemical metabolites, from the ancient to the modern world. In this context, the "RNA world" hypothesis proposes that early in the evolution of life, the ribozyme was responsible for the storage and transfer of genetic information and for the catalysis of biochemical reactions. Accordingly, the hammerhead ribozyme (HHR) and the hairpin ribozyme, belong to a family of endonucleolytic RNAs performing self-cleavage that might occur during replication. Furthermore, regarding the ultraconserved occurrence of HHR in several genomes of modern organisms (from mammals to small parasites and elsewhere), these small ribozymes have been regarded as living fossils of a primitive RNA world. They fold into 3D structures that generally require long-range intramolecular interactions to adopt the catalytically active conformation under specific physicochemical conditions. By studying viroids as plausible remains of ancient RNA, we recently demonstrated that they replicate in non-specific hosts, emphasizing their adaptability to different environments, which enhanced their survival probability over the ages. All these results exemplify ubiquitously features of life. Those are the versatility and efficiency of small RNAs, viroids and ribozymes, as well as their diversity and adaptability to various extreme conditions. All these traits must have originated in early life to generate novel RNA populations.

scholarly journals RNA Back and Forth: Looking Through Ribozyme and Viroid Motifs

2018 ◽  
Author(s):  
Marie-Christine Maurel ◽  
Fabrice Leclerc ◽  
Jacques Vergne ◽  
Giuseppe Zaccai
Keyword(s):  
Rna World ◽  
Hammerhead Ribozyme ◽  
Intramolecular Interactions ◽  
Modern World ◽  
Hairpin Ribozyme ◽  
Living Fossils ◽  
Evolution Of Life ◽  
Catalytically Active ◽  
World Hypothesis ◽  
Rna World Hypothesis

Current cellular facts allow us to follow the link from chemical to biochemical metabolites, from the ancient to the modern world. In this context, the "RNA world" hypothesis proposes that early in the evolution of life, the ribozyme was responsible for the storage and transfer of genetic information and for the catalysis of biochemical reactions. Accordingly, the hammerhead ribozyme (HHR) and the hairpin ribozyme, belong to a family of endonucleolytic RNAs performing self-cleavage that might occur during replication. Furthermore, regarding the ultraconserved occurrence of HHR in several genomes of modern organisms (from mammals to small parasites and elsewhere), these small ribozymes have been regarded as living fossils of a primitive RNA world. They fold into 3D structures that generally require long-range intramolecular interactions to adopt the catalytically active conformation under specific physicochemical conditions. By studying viroids as plausible remains of ancient RNA, we recently demonstrated that they replicate in non-specific hosts, emphasizing their adaptability to different environments, which enhanced their survival probability over the ages. All these results exemplify ubiquitously features of life. Those are the versatility and efficiency of small RNAs, viroids and ribozymes, as well as their diversity and adaptability to various extreme conditions. All these traits must have originated in early life to generate novel RNA populations.

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