Steered molecular dynamics simulation in rational drug design

PC Do, EH Lee, L Le - Journal of Chemical Information and …, 2018 - ACS Publications
Conventional de novo drug design is time consuming, laborious, and resource intensive. In
recent years, emerging in silico approaches have been proven to be critical to accelerate the …

The latest automated docking technologies for novel drug discovery

J Caballero - Expert opinion on drug discovery, 2021 - Taylor & Francis
Introduction Molecular docking has been consolidated as one of the most important methods
in the molecular modeling field. It has been recognized as a prominent tool in the study of …

Overcoming dissipation in the calculation of standard binding free energies by ligand extraction

C Velez‐Vega, MK Gilson - Journal of computational chemistry, 2013 - Wiley Online Library
This article addresses calculations of the standard free energy of binding from molecular
simulations in which a bound ligand is extracted from its binding site by steered molecular …

Inclusion mechanism of steroid drugs into β-cyclodextrins. Insights from free energy calculations

W Cai, T Sun, P Liu, C Chipot… - The Journal of Physical …, 2009 - ACS Publications
The inclusion of hydrocortisone, progesterone, and testosterone into the cavity of β-
cyclodextrin (β-CD) following two possible orientations was investigated using molecular …

Molecular dynamics simulations of the supramolecular assembly between an azobenzene-containing surfactant and α-cyclodextrin: Role of photoisomerization

X Zheng, D Wang, Z Shuai, X Zhang - The Journal of Physical …, 2012 - ACS Publications
Control of the self-assembly and disassembly at the molecular level has become a subject of
increasing activity. The supramolecular assembly between a photoswitchable azobenzene …

Theoretical and experimental studies on inclusion complexes of pinostrobin and β-cyclodextrins

J Kicuntod, K Sangpheak, M Mueller… - Scientia …, 2018 - mdpi.com
Pinostrobin (PNS) belongs to the flavanone subclass of flavonoids which shows several
biological activities such as anti-inflammatory, anti-cancerogenic, anti-viral and anti …

[HTML][HTML] Linking triphenylphosphonium cation to a bicyclic hydroquinone improves their antiplatelet effect via the regulation of mitochondrial function

D Méndez, F Tellería, M Monroy-Cárdenas… - Redox Biology, 2024 - Elsevier
Platelets are the critical target for preventing and treating pathological thrombus formation.
However, despite current antiplatelet therapy, cardiovascular mortality remains high, and …

A new potentiometric electrode incorporating functionalized β-cyclodextrins for diclofenac determination

J Lenik - Materials Science and Engineering: C, 2014 - Elsevier
This paper reports the preparation of diclofenac-selective membrane electrodes
incorporating β-cyclodextrins:(2-hydroxypropyl)-β-cyclodextrin, heptakis (2, 3, 6-tri-O-methyl) …

Free-energy patterns in inclusion complexes: the relevance of non-included moieties in the stability constants

TFGG Cova, SCC Nunes, AACC Pais - Physical Chemistry Chemical …, 2017 - pubs.rsc.org
Inclusion complexes play a definite role in a variety of applications, ranging from drug
solubilization to smart materials. This work presents a series of studies based on molecular …

Assessment of the usefulness of β-cyclodextrin in the removal of progesterone from the environment

JT Hołaj-Krzak - Science of The Total Environment, 2024 - Elsevier
The paper presents the results and interpretation of theoretical calculations for the
progesterone–β-cyclodextrin (P@ β-CD; G4MP2) and progesterone–β-cyclodextrin–β …