A riboswitch-driven era of new antibacterials

N Giarimoglou, A Kouvela, A Maniatis, A Papakyriakou… - Antibiotics, 2022 - mdpi.com
Riboswitches are structured non-coding RNAs found in the 5′ UTR of important genes for
bacterial metabolism, virulence and survival. Upon the binding of specific ligands that can …

Targeting FMN, TPP, SAM-I, and glmS Riboswitches with Chimeric Antisense Oligonucleotides for Completely Rational Antibacterial Drug Development

N Pavlova, M Traykovska, R Penchovsky - Antibiotics, 2023 - mdpi.com
Antimicrobial drug resistance has emerged as a significant challenge in contemporary
medicine due to the proliferation of numerous bacterial strains resistant to all existing …

TPP Riboswitch Populates Holo-Form-like Structure Even in the Absence of Cognate Ligand at High Mg2+ Concentration

S Kumar, G Reddy - The Journal of Physical Chemistry B, 2022 - ACS Publications
Riboswitches are noncoding RNA that regulate gene expression by folding into specific
three-dimensional structures (holo-form) upon binding by their cognate ligand in the …

Exploring the structure, function of thiamine pyrophosphate riboswitch, and designing small molecules for antibacterial activity

PD Wakchaure, B Ganguly - Wiley Interdisciplinary Reviews …, 2023 - Wiley Online Library
During the last decade, riboswitches emerged as new small‐molecule sensing RNA in
bacteria. Thiamine pyrophosphate (TPP) riboswitch is widely distributed and occurs in …

Crystal structure of Escherichia coli thiamine pyrophosphate-sensing riboswitch in the apo state

HK Lee, YT Lee, L Fan, HM Wilt, CE Conrad, P Yu… - Structure, 2023 - cell.com
The thiamine pyrophosphate (TPP)-sensing riboswitch is one of the earliest discovered and
most widespread riboswitches. Numerous structural studies have been reported for this …

Influence of ion and hydration atmospheres on RNA structure and dynamics: insights from advanced theoretical and computational methods

R Sarkar, A Mainan, S Roy - Chemical Communications, 2024 - pubs.rsc.org
RNA, a highly charged biopolymer composed of negatively charged phosphate groups,
defies electrostatic repulsion to adopt well-defined, compact structures. Hence, the presence …

Molecular level insights into the inhibition of gene expression by thiamine pyrophosphate (TPP) analogs for TPP riboswitch: A well-tempered metadynamics …

PD Wakchaure, B Ganguly - Journal of Molecular Graphics and Modelling, 2021 - Elsevier
Riboswitches are metabolite sensing aptamer domains present in non-coding regions in
RNA and act as gene-regulating elements. Thiamine pyrophosphate (TPP) riboswitch is …

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 …

Biochemistry of thiamine and thiamine phosphate compounds

L Bettendorff, P Wins - 9780128194607, 2021 - orbi.uliege.be
Thiamine (vitamin B1) is an essential molecule for all living organisms. It is the precursor for
several phosphorylated derivatives, the most important being the coenzyme thiamine …

In silico investigation of riboswitches in fungi: structural and dynamical insights into TPP riboswitches in Aspergillus oryzae

V Vargas-Junior, D Antunes, AC Guimarães… - RNA biology, 2022 - Taylor & Francis
Riboswitches are RNA sensors affecting post-transcriptional processes through their ability
to bind to small molecules. Thiamine pyrophosphate (TPP) riboswitch plays a crucial role in …