A computational study of the reaction mechanism and stereospecificity of dihydropyrimidinase

W Meelua, T Wanjai, N Thinkumrob, J Oláh… - Physical Chemistry …, 2023 - pubs.rsc.org
Dihydropyrimidinase (DHPase) is a key enzyme in the pyrimidine pathway, the catabolic
route for synthesis of β-amino acids. It catalyses the reversible conversion of 5, 6 …

Detoxification of Atrazine by Low Molecular Weight Thiols in Alfalfa (Medicago sativa)

JJ Zhang, JY Xu, FF Lu, SF Jin… - Chemical Research in …, 2017 - ACS Publications
Low molecular weight (LMW) thiols in higher plants are a group of sulfur-rich nonprotein
compounds and play primary and multiple roles in cellular redox homeostasis, enzyme …

Computational Study of Base-Catalyzed Thiohemiacetal Decomposition in Pseudomonas mevalonii HMG-CoA Reductase

HN Patel, BE Haines, CV Stauffacher… - The Journal of …, 2023 - ACS Publications
Thiohemiacetals are key intermediates in the active sites of many enzymes catalyzing a
variety of reactions. In the case of Pseudomonas mevalonii 3-hydroxy-3-methylglutaryl …

Does the DFT self-interaction error affect energies calculated in proteins with large QM systems?

A Fouda, U Ryde - Journal of chemical theory and computation, 2016 - ACS Publications
We have examined how the self-interaction error in density-functional theory (DFT)
calculations affects energies calculated on large systems (600–1000 atoms) involving …

Higher flexibility of Glu-172 explains the unusual stereospecificity of glyoxalase I

S Jafari, N Kazemi, U Ryde, M Irani - Inorganic Chemistry, 2018 - ACS Publications
Despite many studies during the latest two decades, the reason for the unusual
stereospecificity of glyoxalase I (GlxI) is still unknown. This metalloenzyme converts both …

Quantum mechanics/molecular mechanics study of the reaction mechanism of glyoxalase I

S Jafari, U Ryde, AEA Fouda, FS Alavi… - Inorganic …, 2020 - ACS Publications
Glyoxalase I (GlxI) is a member of the glyoxalase system, which is important in cell
detoxification and converts hemithioacetals of methylglyoxal (a cytotoxic byproduct of sugar …

Two-substrate glyoxalase I mechanism: a quantum mechanics/molecular mechanics study

S Jafari, U Ryde, M Irani - Inorganic Chemistry, 2020 - ACS Publications
Glyoxalase I (GlxI) is an important enzyme that catalyzes the detoxification of methylglyoxal
(MG) with the help of glutathione (H-SG). It is currently unclear whether MG and H-SG are …

[HTML][HTML] QM/MM study of the stereospecific proton exchange of glutathiohydroxyacetone by glyoxalase I

S Jafari, U Ryde, M Irani - Results in Chemistry, 2019 - Elsevier
We have performed quantum mechanics (QM), molecular mechanics (MM) and hybrid
QM/MM calculations to study the stereospecific proton exchange of glutathiohydroxyacetone …

Can a quantum mechanical cluster model explain the special stereospecificity of glyoxalase I?

S Parvaneh, H Parsa, M Irani - Computational and Theoretical Chemistry, 2020 - Elsevier
Quantum mechanical (QM) cluster approach is a useful and convenient tool to study
mechanisms of enzymatic reactions. Our investigation is to propose a proper QM-cluster that …

[图书][B] Computational Studies on HMG-CoA Reductases and Other Biomolecular Systems

HN Patel - 2023 - search.proquest.com
HMG-CoA reductases are four electron oxidoreductases that process three different
substrates in the same active site. The computational studies performed using theozyme …