Electrochemical aptasensors for antibiotics detection: Recent achievements and applications for monitoring food safety

G Evtugyn, A Porfireva, G Tsekenis, V Oravczova… - Sensors, 2022 - mdpi.com
Antibiotics are often used in human and veterinary medicine for the treatment of bacterial
diseases. However, extensive use of antibiotics in agriculture can result in the contamination …

Aptamer-controlled stimuli-responsive drug release

X Peng, Y Liu, F Peng, T Wang, Z Cheng… - International Journal of …, 2024 - Elsevier
Aptamers have been widely researched and applied in nanomedicine due to their
programmable, activatable, and switchable properties. However, there are few reviews on …

Systematic analysis of the interactions driving small molecule–RNA recognition

G Padroni, NN Patwardhan, M Schapira… - RSC medicinal …, 2020 - pubs.rsc.org
RNA molecules are becoming an important target class in drug discovery. However, the
principles for designing RNA-binding small molecules are yet to be fully uncovered. In this …

Analysis on the in-silico ensemble methods for 3D modelling of ssDNA aptamers

V Bachu, K Barman, P Goswami - Biophysical Chemistry, 2023 - Elsevier
Understanding the 3-D structure of nucleic acid aptamers is important for the rational design
of aptamer-based constructs in various applications, including for developing aptasensors …

Structural and energetic features of base–base stacking contacts in RNA

Z Ali, A Goyal, A Jhunjhunwala, A Mitra… - Journal of Chemical …, 2023 - ACS Publications
Nucleobase π–π stacking is one of the crucial organizing interactions within three-
dimensional (3D) RNA architectures. Characterizing the structural variability of these …

Exploring the Nature of Hydrogen Bonding between RNA and Proteins: A Comprehensive Analysis of RNA: Protein Complexes

D Kagra, R Jangra, P Sharma - ChemPhysChem, 2022 - Wiley Online Library
A nonredundant dataset of∼ 300 high (up to 2.5 Å) resolution X‐ray structures of RNA:
protein complexes were analyzed for hydrogen bonds between amino‐acid residues and …

Molecular Dynamics Simulations of the Aptamer Domain of Guanidinium Ion Binding Riboswitch ykkC-III: Structural Insights into the Discrimination of Cognate and …

I Negi, AS Mahmi, P Seelam Prabhakar… - Journal of Chemical …, 2021 - ACS Publications
Guanidinium ion is a toxic cellular metabolite. The ykkC-III riboswitch, an mRNA stretch,
regulates the gene expression by undergoing a conformational change in response to the …

[HTML][HTML] Advances and Mechanisms of RNA–Ligand Interaction Predictions

C Zhuo, C Zeng, H Liu, H Wang, Y Peng, Y Zhao - Life, 2025 - mdpi.com
The diversity and complexity of RNA include sequence, secondary structure, and tertiary
structure characteristics. These elements are crucial for RNA's specific recognition of other …

Aptamer‐based fluorescent sensor for highly sensitive detection of methamphetamine

Y Wang, Z Wang, Y Tong, D Zhang, K Yun… - …, 2024 - Wiley Online Library
The construction of a fluorescence aptamer sensor was achieved by employing the
fundamental principle of fluorescence resonance energy transfer. By employing molecular …

Decoding the effect of temperatures on conformational stability and order of the ligand unbound thermo-sensing adenine riboswitch using molecular dynamics …

S Das - bioRxiv, 2024 - biorxiv.org
The structure-function relationship of the riboswitch is governed mainly by two factors, ligand
binding and temperature. Most of the experimental studies shed light on structural dynamics …