Peroxidative catalytic behavior of cytochrome c solubilized in reverse micelles

Enriching the biological space of natural products and charting drug metabolites, through real time biotransformation monitoring: The NMR tube bioreactor

BACKGROUND

Natural products offer a wide range of biological activities, but they are not easily integrated in the drug discovery pipeline, because of their inherent scaffold intricacy and the associated complexity in their synthetic chemistry. Enzymes may be used to perform regioselective and stereoselective incorporation of functional groups in the natural product core, avoiding harsh reaction conditions, several protection/deprotection and purification steps.

METHODS

Herein, we developed a three step protocol carried out inside an NMR-tube. 1st-step: STD-NMR was used to predict the: i) capacity of natural products as enzyme substrates and ii) possible regioselectivity of the biotransformations. 2nd-step: The real-time formation of multiple-biotransformation products in the NMR-tube bioreactor was monitored in-situ. 3rd-step: STD-NMR was applied in the mixture of the biotransformed products to screen ligands for protein targets.

RESULTS

Herein, we developed a simple and time-effective process, the "NMR-tube bioreactor", that is able to: (i) predict which component of a mixture of natural products can be enzymatically transformed, (ii) monitor in situ the transformation efficacy and regioselectivity in crude extracts and multiple substrate biotransformations without fractionation and (iii) simultaneously screen for interactions of the biotransformation products with pharmaceutical protein targets.

CONCLUSIONS

We have developed a green, time-, and cost-effective process that provide a simple route from natural products to lead compounds for drug discovery.

GENERAL SIGNIFICANSE

This process can speed up the most crucial steps in the early drug discovery process, and reduce the chemical manipulations usually involved in the pipeline, improving the environmental compatibility.

Green synthesis of enzyme/metal-organic framework composites with high stability in protein denaturing solvents

OBJECTIVES

Enzyme/metal-organic framework composites with high stability in protein denaturing solvents were reported in this study.

RESULTS

Encapsulation of enzyme in metal-organic frameworks (MOFs) via co-precipitation process was realized, and the generality of the synthesis was validated by using cytochrome c, horseradish peroxidase, and Candida antarctica lipase B as model enzymes. The stability of encapsulated enzyme was greatly increased after immobilization on MOFs. Remarkably, when exposed to protein denaturing solvents including dimethyl sulfoxide, dimethyl formamide, methanol, and ethanol, the enzyme/MOF composites still preserved almost 100% of activity. In contrast, free enzymes retained no more than 20% of their original activities at the same condition. This study shows the extraordinary protecting effect of MOF shell on increasing enzyme stability at extremely harsh conditions.

CONCLUSION

The enzyme immobilized in MOF exhibited enhanced thermal stability and high tolerance towards protein denaturing organic solvents.

Measurement and control of pH in the aqueous interior of reverse micelles

The encapsulation of proteins and nucleic acids within the nanoscale water core of reverse micelles has been used for over 3 decades as a vehicle for a wide range of investigations including enzymology, the physical chemistry of confined spaces, protein and nucleic acid structural biology, and drug development and delivery. Unfortunately, the static and dynamical aspects of the distribution of water in solutions of reverse micelles complicate the measurement and interpretation of fundamental parameters such as pH. This is a severe disadvantage in the context of (bio)chemical reactions and protein structure and function, which are generally highly sensitive to pH. There is a need to more fully characterize and control the effective pH of the reverse micelle water core. The buffering effect of titratable head groups of the reverse micelle surfactants is found to often be the dominant variable defining the pH of the water core. Methods for measuring the pH of the reverse micelle aqueous interior using one-dimensional ¹H and two-dimensional heteronuclear NMR spectroscopy are described. Strategies for setting the effective pH of the reverse micelle water core are demonstrated. The exquisite sensitivity of encapsulated proteins to the surfactant, water content, and pH of the reverse micelle is also addressed. These results highlight the importance of assessing the structural fidelity of the encapsulated protein using multidimensional NMR before embarking upon a detailed structural and biophysical characterization.

Imidazolium bromide-based ionic liquid assisted improved activity of trypsin in cationic reverse micelles

The present work reports the imidazolium-based ionic liquids (ILs) assisted enhancement in activity of water-pool solubilized enzyme trypsin in cationic reverse micelles of CTAB. A set of imidazolium ILs (1-alkyl-3-methyl imidazolium bromides) were prepared with varying lengths of their side arm which results in the differential location of these organic salts in the reverse micelles. The different ILs offered varied activating effects on the biocatalyst. The activity of trypsin improved approximately 30-300% in the presence of 0.1-10 mM of different ILs in reverse micelles of CTAB. Trypsin showed approximately 300% (4-fold) increment in its activity in the presence of IL 2 (1-ethyl-3-methyl imidazolium bromide, EMIMBr) compared to that observed in the absence of IL in CTAB reverse micelles. The imidazolium moiety of the IL, resembling the histidine amino acid component of the catalytic triad of hydrolases and its Br(-) counterion, presumably increases the nucleophilicity of water in the vicinity of the enzyme by forming a hydrogen bond that facilitates the enzyme-catalyzed hydrolysis of the ester. However, the ILs with increasing amphiphilic character had little to no effect on the activity of trypsin due to their increased distance from the biocatalyst, as they tend to get localized toward the interfacial region of the aggregates. Dynamic light scattering experimentation was carried out in the presence of ILs to find a possible correlation between the trypsin activity and the size of the aggregates. In concurrence with the observed highest activity in the presence of IL 2, the circular dichroism (CD) spectrum of trypsin in CTAB reverse micelles doped with IL 2 exhibited the lowest mean residue ellipticity (MRE), which is closest to that of the native protein in aqueous buffer.

Superior activity of structurally deprived enzyme-carbon nanotube hybrids in cationic reverse micelles

In the present work, we report the superior activity of hydrophobically adsorbed enzymes onto single-walled carbon nanotubes (SWNTs) in the reverse micelles of cationic surfactants. Horseradish peroxidase and soybean peroxidase adsorbed onto SWNTs endure a notable loss in secondary structure and catalytic activity. This structurally and functionally deformed enzyme-SWNT when confined in CTAB reverse micelles showed approximately 7-9-fold enhancement in activity compared to that was in water and also importantly approximately 1500-3500 times higher activity than that of the enzymes in aqueous-organic biphasic mixtures. The activation observed for this nanobiocomposite is due to the (i) possible localization of enzyme-SWNT hybrid at the micellar interface; (ii) facile transport of substrates across the microscopic interface of reverse micelles; and (iii) greater local concentration of substrates at the augmented interfacial space in the presence of SWNT. This interfacial localization of the SWNT-protein hybrid was tested using FITC-tagged protein (BSA) by fluorescence spectroscopy. FTIR and CD spectroscopy established that the enzyme notably loses its native structure as it gets adsorbed onto the CNTs. However, this loss in the secondary structure is neither aggravated nor recovered when the enzyme-SWNT resides at the reverse micellar interface. So, localization of the surface-active peroxidase-CNT hybrids at the interface is the main reason for significant enzyme activation. The generality of the activation of the enzyme-CNT hybrid by reverse micelles was tested using amphiphiles with varying headgroup sizes, where an overall enhancement in activity was observed with an increase in headgroup size. Activation of this nanobiocomposite would find utmost importance in material science as the activity of structurally deprived enzyme in reverse micelles surpassed (approximately 1.7-fold) even the activity of the native enzyme in water.