Nucleic Acid Thermodynamics Derived from Mechanical Unzipping Experiments [PDF]
Life, 2022 Force-spectroscopy techniques have led to significant progress in studying the physicochemical properties of biomolecules that are not accessible in bulk assays. The application of piconewton forces with laser optical tweezers to single nucleic acids has
Paolo Rissone, Felix Ritort
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MeltR software provides facile determination of nucleic acid thermodynamics [PDF]
Biophysical Reports, 2023 Thermodenaturation (melting) curves of macromolecules are used to determine folding thermodynamic parameters. Notably, this insight into RNA and DNA stability underlies nearest neighbor theory and diverse structure prediction tools.
Jacob P. Sieg +3 more
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Monovalent metal ion binding promotes the first transesterification reaction in the spliceosome
Nature Communications, 2023 Cleavage and formation of phosphodiester bonds in nucleic acids is accomplished by large cellular machineries composed of both protein and RNA. Long thought to rely on a two-metal-ion mechanism for catalysis, structure comparisons revealed many contain ...
Jana Aupič +4 more
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Thermodynamic framework to assess low abundance DNA mutation detection by hybridization. [PDF]
PLoS ONE, 2017 The knowledge of genomic DNA variations in patient samples has a high and increasing value for human diagnostics in its broadest sense. Although many methods and sensors to detect or quantify these variations are available or under development, the ...
Hanny Willems +7 more
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Novel isoguanine derivative of unlocked nucleic acid-Investigations of thermodynamics and biological potential of modified thrombin binding aptamer. [PDF]
PLoS ONE, 2018 Thrombin binding aptamer (TBA), is a short DNA 15-mer that forms G-quadruplex structure and possesses anticoagulant properties. Some chemical modifications, including unlocked nucleic acids (UNA), 2'-deoxy-isoguanosine and 2'-deoxy-4-thiouridine were ...
Weronika Kotkowiak +2 more
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On binding mechanism exploration of organic amphoteric dye Rhodamine B with natural polymeric DNA
Discover Materials, 2023 Nucleic acids, like DNA and RNA, are molecules that are present in any life form. Their most notable function is to encode biological information.
Senchumbeni Yanthan +1 more
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Design principles for ligand-sensing, conformation-switching ribozymes. [PDF]
PLoS Computational Biology, 2009 Nucleic acid sensor elements are proving increasingly useful in biotechnology and biomedical applications. A number of ligand-sensing, conformational-switching ribozymes (also known as allosteric ribozymes or aptazymes) have been generated by some ...
Xi Chen, Andrew D Ellington
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Monovalent ions modulate the flux through multiple folding pathways of an RNA pseudoknot [PDF]
, 2017 The functions of RNA pseudoknots (PKs), which are minimal tertiary structural motifs and an integral part of several ribozymes and ribonucleoprotein complexes, are determined by their structure, stability and dynamics.
Ansari, Anjum +7 more
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Hachimoji DNA and RNA: A genetic system with eight building blocks [PDF]
, 2019 Reported here are DNA and RNA-like systems built from eight (hachi-) nucleotide letters (-moji) that form four orthogonal pairs. This synthetic genetic biopolymer meets the structural requirements needed to support Darwinism, including a polyelectrolyte ...
Bates, Alison M. +15 more
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Control of DNA Strand Displacement Kinetics Using Toehold Exchange [PDF]
, 2009 DNA is increasingly being used as the engineering material of choice for the construction of nanoscale circuits, structures, and motors. Many of these enzyme-free constructions function by DNA strand displacement reactions.
Winfree, Erik, Zhang, David Yu
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