Aptamer-ligand recognition studied by native ion mobility-mass spectrometry

E Daems, D Dewaele, K Barylyuk, K De Wael, F Sobott - Talanta, 2021 - Elsevier
The range of applications for aptamers, small oligonucleotide-based receptors binding to
their targets with high specificity and affinity, has been steadily expanding. Our …

Native electrospray ionization mass spectrometry reveals multiple facets of aptamer–ligand interactions: from mechanism to binding constants

B Gülbakan, K Barylyuk, P Schneider… - Journal of the …, 2018 - ACS Publications
Aptamers are oligonucleotide receptors obtained through an iterative selection process from
random-sequence libraries. Though many aptamers for a broad range of targets with high …

Electrospray ionization of nucleic acid aptamer/small molecule complexes for screening aptamer selectivity

KM Keller, MM Breeden, J Zhang… - Journal of mass …, 2005 - Wiley Online Library
Molecular recognition of small molecule ligands by the nucleic acid aptamers for tobramycin,
ATP, and FMN has been examined using electrospray ionization mass spectrometry (ESI …

Optimizing stem length to improve ligand selectivity in a structure-switching cocaine-binding aptamer

MAD Neves, AA Shoara, O Reinstein… - ACS …, 2017 - ACS Publications
Understanding how aptamer structure and function are related is crucial in the design and
development of aptamer-based biosensors. We have analyzed a series of cocaine-binding …

Exploring the Landscape of Aptamers: From Cross-Reactive to Selective to Specific, High-Affinity Receptors for Cocaine

K Yang, O Alkhamis, J Canoura, A Bryant, EM Gong… - JACS Au, 2024 - ACS Publications
We reported over 20 years ago MNS-4.1, the first DNA aptamer with a micromolar affinity for
cocaine. MNS-4.1 is based on a structural motif that is very common in any random pool of …

Quinine binding by the cocaine-binding aptamer. Thermodynamic and hydrodynamic analysis of high-affinity binding of an off-target ligand

O Reinstein, M Yoo, C Han, T Palmo, SA Beckham… - Biochemistry, 2013 - ACS Publications
The cocaine-binding aptamer is unusual in that it tightly binds molecules other than the
ligand it was selected for. Here, we study the interaction of the cocaine-binding aptamer with …

Do aptamers always bind? The need for a multifaceted analytical approach when demonstrating binding affinity between aptamer and low molecular weight …

F Bottari, E Daems, AM de Vries… - Journal of the …, 2020 - ACS Publications
In this manuscript, we compare different analytical methodologies to validate or disprove the
binding capabilities of aptamer sequences. This was prompted by the lack of a universally …

Unraveling the binding mode of a methamphetamine aptamer: A spectroscopic and calorimetric study

C Sester, JAJ McCone, A Sen, J Vorster, JE Harvey… - Biophysical …, 2022 - cell.com
Nucleic-acid aptamers are bio-molecular recognition agents that bind to their targets with
high specificity and affinity and hold promise in a range of biosensor and therapeutic …

Systematically Modulating Aptamer Affinity and Specificity by Guanosine-to-Inosine Substitution

BA Manuel, SA Sterling, AA Sanford… - Analytical …, 2022 - ACS Publications
Aptamers are widely used in small molecule detection applications due to their specificity,
stability, and cost effectiveness. One key challenge in utilizing aptamers in sensors is …

Defining a stem length-dependent binding mechanism for the cocaine-binding aptamer. A combined NMR and calorimetry study

MAD Neves, O Reinstein, PE Johnson - Biochemistry, 2010 - ACS Publications
We have used a combined approach of NMR spectroscopy and isothermal titration
calorimetry (ITC) to determine the ligand-binding mechanism employed by a cocaine …