Reversible photo-regulation of a hammerhead ribozyme using a diffusible effector.

  title={Reversible photo-regulation of a hammerhead ribozyme using a diffusible effector.},
  author={Hyun-Wu Lee and Stephen G. Robinson and Subhajit Bandyopadhyay and Reginald H. Mitchell and Dipankar Sen},
  journal={Journal of molecular biology},
  volume={371 5},

A light-responsive RNA aptamer for an azobenzene derivative

A novel, small molecule binding RNA aptamer, whose binding is dependent on light-induced change of conformation of its small molecule ligand, and which selectively binds to only the trans photoisomer of azoCm with a KD of 545 nM is developed.

Regulation of mRNA translation by a photoriboswitch

In vitro and in vivo functional analysis showed that the riboswitch, termed Werewolf-1 (Were-1), inhibits translation of a downstream open reading frame when bound to amino-tSS, giving the system robust selectivity for the trans isomer.

Ligand‐dependent ribozymes

The occurrence of ligand‐dependent ribozymes in nature and the many examples realized by researchers that engineered ligand-dependent catalytic RNA motifs are summarized.

Development of photo-responsive synthetic RNA devices

A novel RNA aptamer which selectively binds to one of two light-induced isoforms of a specific small molecule ligand (azoCm) was developed, and a new library for SELEX was designed, containing the partially randomized light motif, as well as entirely randomized flanking regions.

Ribozymes as Molecular Biology Reagents

This chapter reviews the adaptation of ribozymes into unique as well as alternative tools for developing biosensors and reporters, manipulation of target RNA, and biocatalysis of non-phosphoryltransfer reactions.

RNA aptamers that reversibly bind photoresponsive azobenzene-containing peptides.

RNA aptamers that bind to a photoresponsive peptide (KRAzR) containing azobenzene chromophore, which can change its structure by photoirradiation, is reported.

Modulating RNA structure and catalysis: lessons from small cleaving ribozymes

The recent progress in the study of the structures, the folding pathways and the modulation of the small ribozymes derived from natural, self-cleaving, RNA motifs have significantly contributed to today’s knowledge in the field.

Riboswitches that sense S-adenosylmethionine and S-adenosylhomocysteine.

  • J. WangR. Breaker
  • Biology
    Biochemistry and cell biology = Biochimie et biologie cellulaire
  • 2008
The features of SAM and SAH riboswitches are compared to showcase the enormous structural diversity that RNA can harness to form precision genetic switches for compounds that are critical for fundamental metabolic processes.

Intracellular Light‐Activation of Riboswitch Activity

By combining a riboswitch with a cell‐permeable photocaged small‐molecule ligand, an optochemical gene control element was constructed that enabled spatial and temporal control of gene expression in

Rational design of allosteric ribozymes.

Competitive regulation of modular allosteric aptazymes by a small molecule and oligonucleotide effector.

A new principle for the regulation of ribozyme catalysis is established in which two regulatory factors (an oligonucleotide and a small molecule) that switch the ribo enzyme's activity in opposite directions compete for the same binding site in the aptamer domain.

Light-regulated catalysis by an RNA-cleaving deoxyribozyme.

A versatile communication module for controlling RNA folding and catalysis.

The isolation and characterization of a new and considerably versatile RNA element that functions as a communication module to render disparate RNA folding domains interdependent and can be utilized to identify sites in large RNAs that are susceptible to effector regulation.

Rationally designed allosteric variants of hammerhead ribozymes responsive to the HIV-1 Tat protein.

The rational design of the first protein-responsive allosteric ribozymes that are regulated by the HIV-1 Tat is reported, and two classes of TAR-modified hammerhead riboz enzymes and their response to Tat protein and to its derivatives are described.

Design and optimization of effector-activated ribozyme ligases.

The results show that ribozyme ligases can be readily engineered to function as allosteric enzymes, and reveal that many of the techniques and principles previously demonstrated during the development of hammerhead aptazymes may be generalizable.

Altering molecular recognition of RNA aptamers by allosteric selection.

The creation of allosteric hammerhead ribozymes that are activated by theophylline reveals the importance of abstruse aspects of molecular recognition by nucleic acids that are likely to be unapproachable by current methods of rational design.

Control of gene expression by a natural metabolite-responsive ribozyme

It is demonstrated that ribozyme switches may have functioned as metabolite sensors in primitive organisms, and further suggest that modern cells retain some of these ancient genetic control systems.

Engineered Catalytic RNA and DNA

  • David SteeleA. KertsburgG. Soukup
  • Biology, Chemistry
    American journal of pharmacogenomics : genomics-related research in drug development and clinical practice
  • 2003
The remarkable versatility of nucleic acid catalysis is thus the fountainhead for wide-ranging applications of ribozymes and deoxyribozymes in biomedical and biotechnological research.