Combined quantum mechanics/molecular mechanics (QM/MM) methods in computational enzymology

MW van der Kamp, AJ Mulholland - Biochemistry, 2013 - ACS Publications
Computational enzymology is a rapidly maturing field that is increasingly integral to
understanding mechanisms of enzyme-catalyzed reactions and their practical applications …

A comprehensive review of cholinesterase modeling and simulation

D De Boer, N Nguyen, J Mao, J Moore, EJ Sorin - Biomolecules, 2021 - mdpi.com
The present article reviews published efforts to study acetylcholinesterase and
butyrylcholinesterase structure and function using computer-based modeling and simulation …

Catalytic mechanisms for cofactor-free oxidase-catalyzed reactions: reaction pathways of uricase-catalyzed oxidation and hydration of uric acid

D Wei, X Huang, Y Qiao, J Rao, L Wang, F Liao… - ACS …, 2017 - ACS Publications
First-principles quantum mechanical/molecular mechanical (QM/MM)-free energy
calculations have been performed to uncover how uricase catalyzes metabolic reactions of …

A highly efficient cocaine-detoxifying enzyme obtained by computational design

F Zheng, L Xue, S Hou, J Liu, M Zhan, W Yang… - Nature …, 2014 - nature.com
Compared with naturally occurring enzymes, computationally designed enzymes are usually
much less efficient, with their catalytic activities being more than six orders of magnitude …

Development of a highly efficient long-acting cocaine hydrolase entity to accelerate cocaine metabolism

F Zheng, Z Jin, J Deng, X Chen, X Zheng… - Bioconjugate …, 2022 - ACS Publications
It is particularly challenging to develop a truly effective pharmacotherapy for cocaine use
disorder (CUD) treatment. Accelerating cocaine metabolism via hydrolysis at cocaine …

Catalytic activities of a highly efficient cocaine hydrolase for hydrolysis of biologically active cocaine metabolites norcocaine and benzoylecgonine

L Shang, Z Jin, H Wei, S Park, CG Zhan, F Zheng - Scientific Reports, 2023 - nature.com
Cocaine is a widely abused, hepatotoxic drug without an FDA-approved pharmacotherapy
specific for cocaine addiction or overdose. It is recognized as a promising therapeutic …

Human Butyrylcholinesterase Mutants for (−)-Cocaine Hydrolysis: A Correlation Relationship between Catalytic Efficiency and Total Hydrogen Bonding Energy with an …

F Zheng, S Hou, L Xue, W Yang… - The Journal of Physical …, 2023 - ACS Publications
A combined computational and experimental study has been carried out to explore and test
a quantitative correlation relationship between the relative catalytic efficiency (RCE) of …

Gender differences in cocaine‐induced hyperactivity and dopamine transporter trafficking to the plasma membrane

J Deng, X Zheng, L Shang, CG Zhan… - Addiction biology, 2022 - Wiley Online Library
As well known, cocaine induces stimulant effects and dopamine transporter (DAT) trafficking
to the plasma membrane of dopaminergic neurons. In the present study, we examined …

Kinetic characterization of high-activity mutants of human butyrylcholinesterase for the cocaine metabolite norcocaine

M Zhan, S Hou, CG Zhan, F Zheng - Biochemical Journal, 2014 - portlandpress.com
It has been known that cocaine produces its toxic and physiological effects through not only
cocaine itself, but also norcocaine formed from cocaine oxidation catalysed by microsomal …

Plant-expressed cocaine hydrolase variants of butyrylcholinesterase exhibit altered allosteric effects of cholinesterase activity and increased inhibitor sensitivity

KE Larrimore, IC Kazan, L Kannan, RP Kendle… - Scientific reports, 2017 - nature.com
Butyrylcholinesterase (BChE) is an enzyme with broad substrate and ligand specificities and
may function as a generalized bioscavenger by binding and/or hydrolyzing various …