Ramotowska S, Spisz P, Brzeski J, Ciesielska A, Makowski M. Application of the SwitchSense Technique for the Study of Small Molecules’ (Ethidium Bromide and Selected Sulfonamide Derivatives) Affinity to DNA in Real Time.
J Phys Chem B 2022;
126:7238-7251. [PMID:
36106569 PMCID:
PMC9527753 DOI:
10.1021/acs.jpcb.2c03138]
[Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
![]()
The discovery and introduction of the switchSense technique
in
the chemical laboratory have drawn well-deserved interest owing to
its wide range of applications. Namely, it can be used to determine
the diameter of proteins, alterations in their tertiary structures
(folding), and many other conformational changes that are important
from a biological point of view. The essence of this technique is
based on its ability to study of the interactions between an analyte
and a ligand in real time (in a buffer flow). Its simplicity, on the
other hand, is based on the use of a signaling system that provides
information about the ongoing interactions based on the changes in
the fluorescence intensity. This technique can be extremely advantageous
in the study of new pharmaceuticals. The design of compounds with
biological activity, as well as the determination of their molecular
targets and modes of interactions, is crucial in the search for new
drugs and the fight against drug resistance. This article presents
another possible application of the switchSense technique for the
study of the binding kinetics of small model molecules such as ethidium
bromide (EB) and selected sulfonamide derivatives with DNA in the
static and dynamic modes at three different temperatures (15, 25,
and 37 °C) each. The experimental results remain in very good
agreement with the molecular dynamics docking ones. These physicochemical
insights and applications obtained from the switchSense technique
allow for the design of an effective strategy for molecular interaction
assessments of small but pharmaceutically important molecules with
DNA.
Collapse