Chemical kinetics and interactions involved in horseradish peroxidase-mediated oxidative polymerization of phenolic compounds

Experimental and theoretical affinity and catalysis studies between halogenated phenols and peroxidases: Understanding the bioremediation potential

Halogenated phenols, such as 2,4-dichlorophenol (2,4-DCP) and 4-bromophenol (4-BP) are pollutants generated by a various industrial sectors like chemical, dye, paper bleaching, pharmaceuticals or in an agriculture as pesticides. The use of Horseradish peroxidase (HRP) in the halogenated phenols treatment has already been mentioned, but it is not well understood how the different phenolic substrates can bind in the peroxidase active site nor how these specific interactions can influence in the bioremediation potential. In this work, different removal efficiencies were obtained for phenolic compounds investigated using HRP as catalyst (93.87 and 59.19% to 4BP and 2,4 DCP, respectively). Thus, to rationalize this result based on the interactions of phenols with active center of HRP, we combine computational and experimental methodologies. The theoretical approaches utilized include density functional theory (DFT) calculations, docking simulation and quantum mechanics/molecular mechanics (QM/MM) technique. Michaelis Menten constant (Km) obtained through experimental methodologies were 2.3 and 0.95 mM to 2,4-DCP and 4-BP, respectively, while the specificity constant (K_cat/K_m) found was 1.44 mM^-1 s^-1 and 0.62 mM^-1 s^-1 for 4-BP and 2,4-DCP, respectively. The experimental parameters appointed to the highest affinity of HRP to 4-BP. According to the molecular docking calculations, both ligands have shown stabilizing intermolecular interaction energies within the HRP active site, however, the 4-BP showed more stabilizing interaction energy (-53.00 kcal mol^-1) than 2,4-dichlorophenol (-49.23 kcal mol^-1). Besides that, oxidative mechanism of 4-BP and 2,4-DCP was investigated by the hybrid QM/MM approach. This study showed that the lowest activation energy values for transition states investigated were obtained for 4-BP. Therefore, by theoretical approach, the compound 4-BP showed the more stabilizing interaction and activation energy values related to the interaction within the enzyme and the oxidative reaction mechanism, respectively, which corroborates with experimental parameters obtained. The combination between experimental and theoretical approaches was essential to understand how the degradation potential of the HRP enzyme depends on the interactions between substrate and the active center cavity of the enzyme.

Luminescence-Sensing Tb-MOF Nanozyme for the Detection and Degradation of Estrogen Endocrine Disruptors

Using flexible structures and components of metal-organic framework (MOF) materials, we designed and developed an artificial nanozyme with dual functions of a catalyst and luminescent sensor specifically for the determination and degradation of hormone 17β-estradiol (E2) and its derivatives (E1, E3, and EE2), a class of disruptors with strong effect on the human endocrine system. This nanozyme composed of the luminescent Tb³⁺ ion, catalytic coenzyme factor hemin, and light-harvesting ligand can be used to both degrade E2 like natural horseradish peroxidase (HRP) and sense E2 as low as 50 pM by its luminescence. The nanozyme catalyzes the decomposition of E2 and its derivatives through a mechanism of active hydroxyl radicals and oxidative high-valent iron-oxo intermediates. The prepared nanozyme is pluripotent, stable, and cheap and can replace the widely used combination of natural enzyme and chromogenic substrate. The present strategy of constructing artificial enzymes directly from functional units provides a new way for the design and development of smart, multifunctional artificial enzymes.

Copper, dityrosine cross-links and amyloid-β aggregation

Copper is involved in Alzheimer's disease (AD) where it appears to affect the aggregation of amyloid-β (Aβ) and to catalyze the production of reactive oxygen species (ROS). Oxidative stress apparently produces Aβ dimers that are covalently linked through two tyrosine residues. Such dityrosine cross-links are considered as potential markers of the disease and seem to be implicated in the pathological disorder. In the present study, pure o,o'-dityrosine (diY) was prepared enzymatically (with horseradish peroxidase; HRP), which was subsequently used to construct calibration lines aimed at quantifying nanomolar amounts of diY in reaction mixtures by fluorescence spectroscopy. Hence, diY concentrations down to 67 nM could be determined, which allowed to find that ca. 3% of dityrosine-bridged dimers of Aβ(1-40) were produced after 3 days at 37 °C in the presence of copper and dihydrogen peroxide. These cross-linked dimers in the presence of copper(II) ions completely inhibit the typical aggregation of Aβ, since β sheets could not be detected applying the usual Thioflavin T (ThT) method. Furthermore, the use of a potent Cu(II) chelator, such as the ATCUN tripeptide, L-histidyl-L-alanyl-L-histidine (HAH), efficiently prevented the copper-mediated generation of ROS and the associated dityrosine-bridged Aβ dimers, suggesting that such metal chelators may find future applications in the field of anti-AD drug design.

A combination of absorption and enzymatic biodegradation: phenol elimination from aqueous and organic phase

Peroxidase from Brassica rapa was immobilized as cross-linked enzyme aggregates (CLEAs) and used to treat air containing phenol as a model molecule of volatile organic compounds (VOCs). Prior to an enzymatic treatment, phenol was absorbed into an aqueous or organic phase (silicone oil) to reach concentrations ranging from 20 to 160 mg/L. The process was carried out by introducing a desired weighing of BRP-CLEAs into preparations and reaction was started by injecting H₂O₂ solution to the medium. Optimization of the reaction conditions in the organic solvent revealed an optimal contact time of 60 min, 60 mg/L of phenol concentration and 3 mM H₂O₂, leading to a maximum removal yield of 70% for 3.4 UI/mL of BRP-CLEAs. These results were compared to those obtained in an aqueous medium that showed 90% of degradation yield after 40 min in the following conditions, 90 mg/L of initial phenol amount, 2 mM of H₂O₂ and 2.5 UI/mL of BRP-CLEAs. Parameters of the Michaelis-Menten model, Km and Vmax, were also determined for the reaction in both phases. Phenol removal by BRP-CLEAs in silicone oil succeeded with 70% of conversion yield. It is promising regarding the transposition of such enzymatic process to hydrophobic VOCs.

Comprehensive assessment of Cytochrome P450 reactions: A multiplex approach using real-time ESI-MS

BACKGROUND

The detailed analysis of Cytochrome P450 (CYP) catalyzed reactions is of great interest, since those are of importance for biotechnical applications, drug interaction studies and environmental research. Often cocktail approaches are carried out in order to monitor several CYP activities in a single experiment. Commonly in these approaches product formation is detected and IC50 values are determined.

METHODS

In the present work, the reactions of two different CYP isoforms were monitored using real-time electrospray ionization mass spectrometry. Multiplex experiments using the highly specific CYP2A6 with its corresponding substrate coumarin as well as the highly promiscuous CYP3A4 with testosterone were conducted. Product formation and substrate depletion were simultaneously monitored and compared to the single CYP experiments. The diffusion-controlled rate of reaction and conversion rates that are used as parameters to assess the enzymatic activity were calculated for all measurements conducted.

RESULTS

Differences in conversion rates and the theoretical rate of reaction that were observed for single CYP and multiplex experiments, respectively, reveal the complexity of the underlying mechanisms. Findings of this study imply that there might be distinct deviations between product formation and substrate degradation when mixtures are used.

CONCLUSIONS

Detailed results indicate that for a comprehensive assessment of these enzymatic reactions both product and substrate should be considered.

GENERAL SIGNIFICANCE

The direct hyphenation of enzymatic reactions to mass spectrometry allows for a comprehensive assessment of enzymatic behavior. Due to the benefits of this technique, the entire system which includes substrate, product and intermediates can be investigated. Thus, besides IC50 values further information regarding the enzymatic behavior offers the opportunity for a more detailed insight.

Immobilization of horseradish peroxidase on electrospun microfibrous membranes for biodegradation and adsorption of bisphenol A

Horseradish peroxidase (HRP) from roots of horseradish (Amoracia rusticana) was successfully immobilized on novel enzyme carriers, poly(methyl methacrylate-co-ethyl acrylate) (PMMA CEA) microfibrous membranes, and used for removal of bisphenol A from water. PMMA CEA fibrous membranes (PFM) with fiber diameters of 300-500 nm, were fabricated by electrospinning. HRP was covalently immobilized on the surface of microfibers previously activated by polyethylenimine and glutaraldehyde. HRP loading reached 285 mg/g, and enzyme activity was 70% of free HRP after immobilization. Both stabilities and reusability of HRP were greatly improved after immobilization. After six repeated runs, immobilized HRP retained about 50% of its initial activity. Immobilized HRP exhibited significantly higher removal efficiency for bisphenol A (BPA) in 3h (93%) compared with free HRP (61%) and PFM alone (42%). The high BPA removal can be resulted by improvement of catalytic activity of immobilized HPR with adsorption on modified PMMA CEA support.