[HTML][HTML] Computational approaches in preclinical studies on drug discovery and development

F Wu, Y Zhou, L Li, X Shen, G Chen, X Wang… - Frontiers in …, 2020 - frontiersin.org
Because undesirable pharmacokinetics and toxicity are significant reasons for the failure of
drug development in the costly late stage, it has been widely recognized that drug ADMET …

[HTML][HTML] Membrane-attached mammalian cytochromes P450: An overview of the membrane's effects on structure, drug binding, and interactions with redox partners

M Šrejber, V Navrátilová, M Paloncýová… - Journal of inorganic …, 2018 - Elsevier
Mammalian cytochromes P450 are an important class of enzymes involved in the
biotransformation of many endo-and exogenous compounds. Cytochrome P450 isoforms …

Biotransformation of sulfamethoxazole by microalgae: Removal efficiency, pathways, and mechanisms

Y Chu, C Zhang, R Wang, X Chen, N Ren, SH Ho - Water Research, 2022 - Elsevier
Recently, the biotransformation of sulfamethoxazole (SMX) by microalgae has attracted
increasing interest. In particular, cytochrome P450 (CYP450) has been suggested to be the …

Protein and ligand preparation: parameters, protocols, and influence on virtual screening enrichments

G Madhavi Sastry, M Adzhigirey, T Day… - Journal of computer …, 2013 - Springer
Abstract Structure-based virtual screening plays an important role in drug discovery and
complements other screening approaches. In general, protein crystal structures are …

Molecular docking

GM Morris, M Lim-Wilby - Molecular modeling of proteins, 2008 - Springer
Molecular docking is a key tool in structural molecular biology and computer-assisted drug
design. The goal of ligand—protein docking is to predict the predominant binding mode (s) …

Toward in silico structure-based ADMET prediction in drug discovery

G Moroy, VY Martiny, P Vayer, BO Villoutreix… - Drug discovery today, 2012 - Elsevier
Quantitative structure–activity relationship (QSAR) methods and related approaches have
been used to investigate the molecular features that influence the absorption, distribution …

Computational prediction of metabolism: sites, products, SAR, P450 enzyme dynamics, and mechanisms

J Kirchmair, MJ Williamson, JD Tyzack… - Journal of chemical …, 2012 - ACS Publications
Metabolism of xenobiotics remains a central challenge for the discovery and development of
drugs, cosmetics, nutritional supplements, and agrochemicals. Metabolic transformations …

[HTML][HTML] Rapid and accurate prediction and scoring of water molecules in protein binding sites

GA Ross, GM Morris, PC Biggin - PloS one, 2012 - journals.plos.org
Water plays a critical role in ligand-protein interactions. However, it is still challenging to
predict accurately not only where water molecules prefer to bind, but also which of those …

New insights into the structural characteristics and functional relevance of the human cytochrome P450 2D6 enzyme

B Wang, LP Yang, XZ Zhang, SQ Huang… - Drug metabolism …, 2009 - Taylor & Francis
To date, the crystal structures of at least 12 human CYPs (1A2, 2A6, 2A13, 2C8, 2C9, 2D6,
2E1, 2R1, 3A4, 7A1, 8A1, and 46A1) have been determined. CYP2D6 accounts for only a …

The role of water molecules in computational drug design

S de Beer, NPE Vermeulen… - Current topics in …, 2010 - ingentaconnect.com
Although water molecules are small and only consist of two different atom types, they play
various roles in cellular systems. This review discusses their influence on the binding …