Browsing Science (Faculty of) by Subject "RNA"
Now showing items 1-9 of 9
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Biochemical Characterization of Fluorophore-Binding Nucleic Acids
(University of Waterloo, 2022-09-27)Aptamers, single stranded RNA or DNA that bind to target ligands with high affinity and specificity, have a wide range of applications, from therapeutics to biosensing, which makes biochemical characterization of the utmost ... -
Catalytic Potential and Ligand Binding Properties of the Malachite Green RNA Aptamer
(University of Waterloo, 2008-09-18)The malachite green aptamer was originally engineered for binding specificity to malachite green (MG). The environment inside the aptamer’s electronegative binding pocket was previously harnessed to catalyze an ester ... -
A Cleavable Molecular Beacon for Hg2+ Detection based on Phosphorothioate RNA Modifications
(American Chemical Society, 2015-06-10)Mercury is a highly toxic heavy metal, and detection of Hg2+ by biosensors has attracted extensive research interest in the past decade. In particular, a number of DNA-based sensing strategies have been developed. Well-known ... -
A DNAzyme requiring two different metal ions at two distinct sites
(Oxford University Press, 2015-12-10)Most previously reported RNA-cleaving DNAzymes require only a single divalent metal ion for catalysis. We recently reported a general trivalent lanthanide-dependent DNAzyme named Ce13d. This work shows that Ce13d requires ... -
Exploring Ligand Structure and Thermodynamics of the Malachite Green RNA Aptamer
(University of Waterloo, 2012-01-20)RNA aptamers are in vitro sequences of RNA that have a high affinity for their target ligand. They have applications in therapeutics, biosensors and molecular machines. While the practical applications of aptamers are ... -
Investigations into Streptomyces azureus Thiostrepton-resistance rRNA Methyltransferase and its Cognate Antibiotic
(University of Waterloo, 2008-12-16)Thiostrepton (TS: TS; C72H85N19O18S5) is a thiazoline antibiotic that is effective against Gram-positive bacteria and the malarial parasite, Plasmodium falciparum. Tight binding of TS to the bacterial L11-23S ribosomal RNA ... -
Ligand Specificity and Affinity in the Sulforhodamine B Binding RNA Aptamer
(Elsevier Inc., 2020-07-18)Binding affinity and selectivity are critical properties of aptamers that must be optimized for any application. The sulforhodamine B binding RNA aptamer (SRB‐2) is a somewhat promiscuous aptamer that can bind ligands ... -
Preparation of a Multi-Part Varkud Satellite Ribozyme Variant for Kinetics Studies
(University of Waterloo, 2009-09-22)The Varkud Satellite (VS) ribozyme is the largest of the “small” nucleolytic ribozymes and is the only one for which there are no high resolution crystal structures available. The VS ribozyme comprises a catalytic domain ... -
Studying the Structure and Kinetics of Functional Nucleic Acids
(University of Waterloo, 2021-09-30)Aptamers are valuable tools in a variety of biotechnological applications, ranging from biosensing to in vivo cell imaging. Studying these molecules can further our understanding of the structure and kinetics of nucleic ...