Biphasic Reaction Engineering

Author(s):  
L. K. Doraiswamy

The chemical equilibria of many industrially important organic reactions in aqueous solutions are often displaced in the direction of the reactants, leading to very low conversions. Therefore, there is a need for an environmentally friendly strategy that will shift the equilibria toward the products, resulting in enhanced conversions. A particularly effective technique is to add a second phase, appropriately termed biphasing. In general, biphasing is the intentional addition of an immiscible phase to a reaction mixture to increase the yield of the desired product or to facilitate separation of product from (say) catalyst. Much of the effort till recently has been on adding a water-immiscible organic solvent in enzyme-catalyzed organic reactions in the aqueous phase. Although strictly the term biphasing should apply only to soluble catalysts, thus preserving the purity of its definition, in practice it also includes insoluble catalysts such as immobilized enzymes (which would constitute a third phase). Biphasing received an exciting stimulus around 1984 when it was used to overcome the inherent and perhaps the most telling deficiency of homogeneous catalysis. By biphasing with an aqueous phase (unlike in enzymatic catalysis where the biphasing liquid is an organic solvent), the catalyst was fully retained in that phase, whereas the product (and unused reactant) remained in the organic phase. The consequent easy separation of catalyst from product added a new dimension to homogeneous catalysis that gives it a decided edge over its heterogeneous counterpart for many reactions. Yet another dimension to biphasing was added in the last decade when it was found that both phases could be aqueous. This variant of traditional biphasing has many obvious advantages. Although still in its infancy, its enormous potential is not difficult to visualize. The chief advantages and disadvantages of biphasing are listed in Table 18.1. We begin our treatment of biphasing by developing the theoretical foundation for predicting an apparent or effective equilibrium constant for a biphasic reaction. This will be done specifically for enzyme-catalyzed reactions, but it can be extended to straight organic synthesis. Several important aspects of these biphasic systems, such as solvent selection and the role of mass transfer, will be discussed.

Author(s):  
Tianyue Jiang ◽  
Chendan Liu ◽  
Xiao Xu ◽  
Bingfang He ◽  
Ran Mo

Exploiting enzyme-catalyzed reactions to manipulate molecular assembly has been considered as an attractive bottom-up nanofabrication approach to developing a variety of nano-, micro-, and macroscale structures. Upon enzymatic catalysis, peptides and their derivatives transform to assemblable building blocks that form ordered architecture by non-covalent interactions. The peptide assemblies with unique characteristics have great potential for applications in bionanotechnology and biomedicine. In this mini review, we describe typical mechanisms of the protease-instructed peptide assembly via bond-cleaving or bond-forming reactions, and outline biomedical applications of the peptide assemblies, such as drug depot, sustained release, controlled release, gelation-regulated cytotoxicity, and matrix construction.


2018 ◽  
Author(s):  
Justin Eilertsen ◽  
Santiago Schnell

<div>As a case study, we consider a coupled enzyme assay of sequential enzyme reactions obeying the Michaelis--Menten reaction mechanism. The sequential reaction consists of a single-substrate, single-enzyme non-observable reaction followed by another single-substrate, single-enzyme observable reaction (indicator reaction). In this assay, the product of the non-observable reaction becomes the substrate of the indicator reaction. A mathematical analysis of the reaction kinetics is performed, and it is found that after an initial fast transient, the sequential reaction is described by a pair of interacting Michaelis--Menten equations. Timescales that approximate the respective lengths of the indicator and non-observable reactions, as well as conditions for the validity of the Michaelis--Menten equations are derived. The theory can be extended to deal with more complex sequences of enzyme catalyzed reactions.</div>


2018 ◽  
Author(s):  
Justin Eilertsen ◽  
Santiago Schnell

<div>As a case study, we consider a coupled enzyme assay of sequential enzyme reactions obeying the Michaelis-Menten reaction mechanism. The sequential reaction consists of a single-substrate, single enzyme non-observable reaction followed by another single-substrate, single enzyme observable reaction (indicator reaction). In this assay, the product of the non-observable reaction becomes the substrate of the indicator reaction. A mathematical analysis of the reaction kinetics is performed, and it is found that after an initial fast transient, the sequential reaction is described by a pair of interacting Michaelis-Menten equations. Timescales that approximate the respective lengths of the indicator and non-observable reactions, as well as conditions for the validity of the Michaelis-Menten equations are derived. The theory can be extended to deal with more complex sequences of enzyme catalyzed reactions.</div>


2018 ◽  
Author(s):  
Timothy Newhouse ◽  
Daria E. Kim ◽  
Joshua E. Zweig

The diverse molecular architectures of terpene natural products are assembled by exquisite enzyme-catalyzed reactions. Successful recapitulation of these transformations using chemical synthesis is hard to predict from first principles and therefore challenging to execute. A means of evaluating the feasibility of such chemical reactions would greatly enable the development of concise syntheses of complex small molecules. Herein, we report the computational analysis of the energetic favorability of a key bio-inspired transformation, which we use to inform our synthetic strategy. This approach was applied to synthesize two constituents of the historically challenging indole diterpenoid class, resulting in a concise route to (–)-paspaline A in 9 steps from commercially available materials and the first pathway to and structural confirmation of emindole PB in 13 steps. This work highlights how traditional retrosynthetic design can be augmented with quantum chemical calculations to reveal energetically feasible synthetic disconnections, minimizing time-consuming and expensive empirical evaluation.


Metabolites ◽  
2021 ◽  
Vol 11 (1) ◽  
pp. 48
Author(s):  
Marc Feuermann ◽  
Emmanuel Boutet ◽  
Anne Morgat ◽  
Kristian Axelsen ◽  
Parit Bansal ◽  
...  

The UniProt Knowledgebase UniProtKB is a comprehensive, high-quality, and freely accessible resource of protein sequences and functional annotation that covers genomes and proteomes from tens of thousands of taxa, including a broad range of plants and microorganisms producing natural products of medical, nutritional, and agronomical interest. Here we describe work that enhances the utility of UniProtKB as a support for both the study of natural products and for their discovery. The foundation of this work is an improved representation of natural product metabolism in UniProtKB using Rhea, an expert-curated knowledgebase of biochemical reactions, that is built on the ChEBI (Chemical Entities of Biological Interest) ontology of small molecules. Knowledge of natural products and precursors is captured in ChEBI, enzyme-catalyzed reactions in Rhea, and enzymes in UniProtKB/Swiss-Prot, thereby linking chemical structure data directly to protein knowledge. We provide a practical demonstration of how users can search UniProtKB for protein knowledge relevant to natural products through interactive or programmatic queries using metabolite names and synonyms, chemical identifiers, chemical classes, and chemical structures and show how to federate UniProtKB with other data and knowledge resources and tools using semantic web technologies such as RDF and SPARQL. All UniProtKB data are freely available for download in a broad range of formats for users to further mine or exploit as an annotation source, to enrich other natural product datasets and databases.


ChemInform ◽  
2012 ◽  
Vol 43 (29) ◽  
pp. no-no
Author(s):  
Richard Lonsdale ◽  
Jeremy N. Harvey ◽  
Adrian J. Mulholland

1998 ◽  
Vol 30 (6) ◽  
pp. 735-743 ◽  
Author(s):  
Carmelo Garrido-del Solo ◽  
Francisco Garcı́a-Cánovas ◽  
José Tudela ◽  
Bent H. Havsteen ◽  
Ramón Varón-Castellanos

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