[HTML][HTML] The ONIOM method and its applications

LW Chung, WMC Sameera, R Ramozzi… - Chemical …, 2015 - ACS Publications
The fields of theoretical and computational chemistry have come a long way since their
inception in the mid-20th century. Fifty years ago, only rudimentary approximations for very …

Cyclin-dependent kinase-2 as a target for cancer therapy: progress in the development of CDK2 inhibitors as anti-cancer agents

TA Chohan, H Qian, Y Pan… - Current medicinal …, 2015 - ingentaconnect.com
Cyclin-dependent kinase-2 (CDK2) is a member of protein kinase family. It plays an
important role in regulating various events of eukaryotic cell division cycle. Accumulated …

Is it reliable to take the molecular docking top scoring position as the best solution without considering available structural data?

D Ramírez, J Caballero - Molecules, 2018 - mdpi.com
Molecular docking is the most frequently used computational method for studying the
interactions between organic molecules and biological macromolecules. In this context …

Extra precision docking, free energy calculation and molecular dynamics simulation studies of CDK2 inhibitors

SK Tripathi, R Muttineni, SK Singh - Journal of theoretical biology, 2013 - Elsevier
Molecular docking, free energy calculation and molecular dynamics (MD) simulation studies
have been performed, to explore the putative binding modes of 3, 5-diaminoindazoles …

Fluorine Bonding How Does It Work In Protein− Ligand Interactions?

P Zhou, J Zou, F Tian, Z Shang - Journal of chemical information …, 2009 - ACS Publications
Although fluorination of pharmacologically active compounds has long been a common
strategy to increase their metabolic stability and membrane permeation, the functionality of …

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 …

Molecular modeling studies to characterize N-phenylpyrimidin-2-amine selectivity for CDK2 and CDK4 through 3D-QSAR and molecular dynamics simulations

TA Chohan, JJ Chen, HY Qian, YL Pan… - Molecular …, 2016 - pubs.rsc.org
CDK2 is a promising target for the development of anti-cancer agents. It is not an easy task
to design CDK2-selective inhibitors which do not exhibit activity for other CDK family …

Recent advances on CDK inhibitors: An insight by means of in silico methods

M Tutone, AM Almerico - European Journal of Medicinal Chemistry, 2017 - Elsevier
The cyclin dependent kinases (CDKs) are a small family of serine/threonine protein kinases
that can act as a potential therapeutic target in several proliferative diseases, including …

Computational modelling of nanotube delivery of anti-cancer drug into glutathione reductase enzyme

SS Begum, D Das, NK Gour, RC Deka - Scientific Reports, 2021 - nature.com
Density functional theory method combined with docking and molecular dynamics
simulations are used to understand the interaction of carmustine with human glutathione …

Halogen–water–hydrogen bridges in biomolecules

P Zhou, J Lv, J Zou, F Tian, Z Shang - Journal of structural biology, 2010 - Elsevier
The importance of water in biological systems has long been recognized in chemistry and
biology communities. In this article we describe a new manner by which water affects …