A steady state model of sequential irreversible enzyme reactions

Summary One of the questions which arises in the study of certain inborn errors of metabolism as well as in the field of enzyme kinetics is: what are the quantitative relationships between parameters of enzyme activity and substrate pool sizes in a metabolic pathway? A steady state model has been devised to answer this question for a homogeneous system of non-branched sequential irreversible enzyme reactions which follow Michaelis-Menten kinetics. The concentration of a substrate in such a pathway, [S_i], is a function of 5 variables: (a) the K_M of the enzyme which forms the substrate (K_{M (i–1)}), (b) the K_M of the enzyme which utilizes the substrate (K_{M i}), (c) the V_max of the enzyme which forms the substrate (V_{m (i–1)}), (d) the V_max of the enzyme which utilizes the substrate (V_{m i}) and (e) the immediate precursor concentration [S_(i–1)] where [S_i] = K_{M i} V_{m (i–1)} [S_(i–1)]/[S_(i–1)] (V_mi -V_{m (i–1)}) + K_{M (i–1)}) V_mi The model introduces and defines the concept of and conditions for amplification. An input in the form of a steady state concentration of precursor [S_(i–1)] may be amplified as an output in the form of an increased steady state concentration of product [S_i]. The model also defines the values of the above 5 parameters which do not allow attainment of a steady state for the type of pathway considered.From the Metabolism Branch, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20014.     

Preparation and characterization of UV-curable polymeric support for covalent immobilization of xylanase enzyme

The hydroxyl group of poly(ethylene glycol) monoacrylate (PEGMA) was activated by 1,1′-carbonyldiimidazole (CDI) and then a xylanase enzyme was immobilized to amine active PEGMA. UV-curable polymeric support formulation was prepared by mixing the xylanase bonded PEGMA, aliphatic polyester, 2-hydroxyethyl methacrylate (HEMA), poly(ethylene glycol) diacrylate (PEGDA) and photoinitiator. After UV irradiation, the enzymatic activity of the polymeric matrix was evaluated and compared with the corresponding free enzyme. By immobilization, the temperature resistance of the enzyme was improved and showed maximum activity at 60 °C. pH dependent activities of the free and immobilized enzymes were also investigated, and it was found that the pH of maximum activity for the free enzyme was 6.0, while for the optimal pH of the immobilized enzyme was 6.5. The immobilized enzyme retained 75% of its activity after 33 runs. The morphology of the polymeric support was characterized by scanning electron microscopy (SEM) and energy dispersive spectroscopy (EDS) coupled with SEM was used to explore the chemical composition. The results have confirmed the evidence of enzyme in the structure of the polymeric material.     

Enhancement of selectivity in recognition of nucleic acids via chemical autoligation.

A new approach to increase the selectivity of interaction between oligonucleotide probes and target nucleic acids is described. In place of a single, relatively long oligonucleotide probe, two or three short oligomers terminated by thiophosphoryl and bromoacetamido groups are employed. Fast and efficient autoligation takes place when the oligomers hybridize in a contiguous mode to the same complementary strand such that a thiophosphoryl group on one strand and a bromoacetamido group on another are brought into proximity. A single nucleotide mismatch for the short probes leads to marked reduction in the rate of autoligation. The binding affinity of the product is close to that for a natural probe of the same length. This approach could have potential in oligonucleotide-based diagnostics, chemical amplification systems, and therapeutic applications.     

The C-4 stereochemistry of leucocyanidin substrates for anthocyanidin synthase affects product selectivity

Anthocyanidin synthase (ANS), an iron(II) and 2-oxoglutarate (2OG) dependent oxygenase, catalyses the penultimate step in anthocyanin biosynthesis by oxidation of the 2R,3S,4S-cis-leucoanthocyanidins. It has been believed that in vivo the products of ANS are the anthocyanidins. However, in vitro studies on ANS using optically active cis- and trans-leucocyanidin substrates identified cyanidin as only a minor product; instead both quercetin and dihydroquercetin are products with the distribution being dependent on the C-4 stereochemistry of the leucocyanidin substrates.     

Recent trends using natural polymeric nanofibers as supports for enzyme immobilization and catalysis

All the disciplines of science, especially biotechnology, have given continuous attention to the area of enzyme immobilization. However, the structural support made by material science intervention determines the performance of immobilized enzymes. Studies have proven that nanostructured supports can maintain better catalytic performance and improve immobilization efficiency. The recent trends in the application of nanofibers using natural polymers for enzyme immobilization have been addressed in this review article. A comprehensive survey about the immobilization strategies and their characteristics are highlighted. The natural polymers, e.g., chitin, chitosan, silk fibroin, gelatin, cellulose, and their blends with other synthetic polymers capable of immobilizing enzymes in their 1D nanofibrous form, are discussed. The multiple applications of enzymes immobilized on nanofibers in biocatalysis, biosensors, biofuels, antifouling, regenerative medicine, biomolecule degradation, etc.; some of these are discussed in this review article.     

Enhancement of fibrinolytic enzyme production from Bacillus subtilis via immobilization process onto radiation synthesized starch/dimethylaminoethyl methacrylate hydrogel

Hydrogel matrices based on starch and dimethylaminoethyl methacrylate (Starch/DMAEMA) were synthesized including γ-irradiation as a clean initiator. The prepared hydrogels were characterized in terms of their gel fraction yield, degree of equilibrium swelling. The prepared hydrogels were examined as carriers for immobilization of Bacillus subtilis that has the ability to secrete an extracellular fibrinolytic enzyme that degrades fibrin. Scanning electron microscope (SEM) analysis showed proliferation of the bacterial cells entrapped inside the polymeric matrix. The immobilization process increases the production time of fibrinolytic enzyme up to 120 h instead of 96 h for the free cells. The optimum temperature of activity broadened and a significant shift in the pH optima was observed upon immobilization. The reusability of immobilized cells under repeated batch fermentation conditions was also investigated. At the optimum production conditions, immobilization of B. subtilis cells onto Starch/DMAEMA resulted in a four fold increase in enzyme activity.     

Enhanced enzymatic cellulose degradation by cellobiohydrolases via product removal

Product inhibition by cellobiose decreases the rate of enzymatic cellulose degradation. The optimal reaction conditions for two Emericella (Aspergillus) nidulans-derived cellobiohydrolases I and II produced in Pichia pastoris were identified as CBHI: 52 °C, pH 4.5–6.5, and CBHII: 46 °C, pH 4.8. The optimum in a mixture of the two was 50 °C, pH 4.9. An almost fourfold increase in enzymatic hydrolysis yield was achieved with intermittent product removal of cellobiose with membrane filtration (2 kDa cut-off): The conversion of cotton cellulose after 72 h was ~19 % by weight, whereas the conversion in the parallel batch reaction was only ~5 % by weight. Also, a synergistic effect, achieving ~27 % substrate conversion, was obtained by addition of endo-1,4-β-d-glucanase. The synergistic effect was only obtained with product removal. By using pure, monoactive enzymes, the work illustrates the profound gains achievable by intermittent product removal during cellulose hydrolysis.     

Enhancement of cloned gene product synthesis via autoselection in recombinant Saccharomyces cerevisiae

Saccharomyces cerevisiae autoselection strains with mutations in the ura3, fur1, and urid-k genes have been obtained through a sequential isolation procedure. This autoselection system is an extension of one described by Loison et al. The mutations effectively block both the pyrimidine biosynthetic and salvage pathways and in combination are lethal to the host. Therefore, a plasmidencoded URA3 gene is essential for cell viability regardless of the growth conditions, and complex (traditionally nonselective) media can be employed without the risk of plasmid loss. The effects of medium enrichment on growth and cloned gene product synthesis were examined in batch culture for two autoselection strains. The plasmid gene product beta-galactosidase was under the control of the yeast GAL1 promoter, and two methods of induction were employed; one strain was induced via temperature shift while the other was induced by galactose addition. Three nutrient media were investigated: a lean selective medium (SD), a richer semidefined medium (SDC), and a rich complex medium (YPD). The results demonstrated the improvements in cloned gene productivity possible when the growth medium is enriched, with up to 10-fold increases in beta-galactosidase productivity observed. Plasmid instability and mutation reversion were not problems for the autoselection strains, even in uracil-containing medium. Short-term plasmid stabilities were approximately 90% in all three media tested. During continuous culture of the autoselection temperature-sensitive strain, long-term plasmid stability was excellent and beta-galactosidase expression remained high after more than 25 residence times under inducing conditions. In contrast, both beta-galactosidase specific activity and plasmid stability decreased linearly with time for an analogous nonautoselection strain. The introduced fur1 and uridk mutations were very stable; after more than 50 generations of growth in complex medium, stability values of 99-100% were measured. (c) 1993 Wiley & Sons, Inc.     

The time evolution of sequential enzyme reactions: A singular perturbation approach

A perturbative procedure is developed to describe the entire time course of a sequential enzyme reaction occurring in a closed system. The perturbation parameter is the ratio of the enzyme concentration to a reference concentration defined in analogy with the Michaelis-Menten constant. It is shown that damped oscillations may occur about the quasi-steady state for certain realistic values of the parameters. Even under the most favourable circumstances, the damping is exceptionally heavy. In contrast, the evolution to the equilibrium is always monotonic.     

A generalized theory of the transition time for sequential enzyme reactions.

In a sequence of coupled enzyme reactions the steady-state production of product is preceded by a lag period or transition time during which the intermediates of the sequence are accumulating. Provided that a steady state is eventually reached, the magnitude of this lag may be calculated, even when the differentiation equations describing the process have no analytical solution. The calculation may be made for simple systems in which the enzymes obey Michaelis-Menten kinetics or for more complex pathways in which intermediates act as modifiers of the enzymes. The transition time associated with each intermediate in the sequence is given by the ratio of the appropriate steady-state intermediate concentration to the steady-state flux. The theory is also applicable to the transition between steady states produced by flux changes. Application of the theory to coupled enzyme assays allows a definition of the minimum requirements for successful operation of the assay. The theory can be extended to deal with sequences in which the enzyme concentration exceeds substrate concentration.     

Carbohydrate-hydrolyzing enzyme ratios during fungal degradation of woody and non-woody lignocellulose substrates

Understanding the order that enzymes are secreted during lignocellulosic degradation is relevant both to better understanding basic fungal degradation mechanisms and to industrial attempts to control reactions for biofuels production and other bioprocessing technology. Much is known about the enzymes that are produced and their effect on individual substrates, but little is known about temporal variation and relative enzyme activity on different lignocellulosics substrates. Wood decay fungi Trametes versicolor and Postia placenta were grown in liquid culture with different substrates (aspen, pine, corn stover, prairie grass and alfalfa) over a 16-week period. Samples of liquid media were taken every 2 weeks for endoglucanase, β-glucosidase and xylanase activity measurement. Endoglucanase:β-glucosidase:xylanase ratios varied for both fungi over the sampling period. T. versicolor showed large differences in cellulase enzyme (total cellulase:endoglucanase:β-glucosidase) composition when grown on woody substrates compared with non-woody substrates; there were also difference between the two wood types. This research presents evidence that the ratio of carbohydrate-hydrolyzing enzymes secreted by fungi is not influenced solely by lignin:carbohydrate content of the substrate and other factors including cell anatomy and constituent composition have some control on enzyme production. This provides a useful and broad survey of natural adaptations to various plant tissues relevant to bioenergy and general bioprospecting.     

Effect of water activity and immobilization on fatty acid selectivity for esterification reactions mediated by lipases

The effect of water activity (a(w)) and immobilization on fatty acid (FA) selectivity of Burkholderia (formerly Pseudomonas) cepacia, Rhizomucor miehei, Candida antarctica (type B), and Candida rugosa lipases in esterification reactions was determined. Studies were based on measuring ester formation in multicompetitive reaction mixtures containing either the homologous series of even carbon number n-chain saturated FA (C4-C18) or a series of n-chain (un)saturated FA (C18:X, where X = 0-3 double bonds) as cosubstrates with 1,3-propanediol in ter-butyl methyl ether at a(w) of 0.19, 0.69, and 0.90. Activity and FA selectively patterns were similar for free and Celite-adsorbed lipases in response to changes in a(w'), although specific effects were observed for selectivity of B. cepacia and C. rugosa lipases toward C16 and C4/C6 FA, respectively. Also, selectivity toward unsaturated C18:X FA as a group was modulated by changes in a(w) for three of the four lipase studied. Resin-fixed lipases from R. miehei and C. antarctica exhibited profound differences in activity and FA selectively in response to changes in a(w'), relative to free and Celite-bound forms. These findings suggest that FA selectivity for lipid modification is influenced by a(w) and immobilization, but that each lipase has a characteristic response to these factors in a manner that cannot be predicted.     

酶的固定化技术最新研究进展

酶是一种高效、绿色、应用广泛的生物催化剂,因其固定化形态在多种性质上均优于游离态,酶固定化技术应运而生并不断发展。我国固定化技术研究始于20世纪70年代,目前固定化酶在食品、医疗、能源、环境治理等领域得到了广泛的应用,但现有固定化技术仍存在适用范围小、成本较高等缺陷。因此,在较为成熟的传统固定化技术基础上,研究者们对新型固定化技术的研究与创新进行了大量尝试,形成了一批以固定化载体和固定化方式为核心的新型固定化技术。文中作者结合团队十余年对固定化技术的研究和理解,归纳介绍了新型酶固定化技术的发展方向和应用趋势,并阐述了对固定化技术未来发展的理解和建议。     

Deriving the rate equations for product inhibition patterns in bisubstrate enzyme reactions

In this work, the full rate equations for 17 completely reversible bisubstrate enzyme kinetic mechanisms, with two substrates in the forward and two in the reverse direction, have been presented; among these are rapid equilibrium, steady-state, and mixed steady-state and rapid equilibrium mechanisms. From each rate equation eight product inhibition equations were derived, four for the forward and four for the reverse direction. All the corresponding product inhibition equations were derived in full; thus a total of 17 × 8 = 136 equations, were presented. From these equations a list of product inhibition patterns were constructed and presented in a tabular form, both for the primary plots (intercept effects) and the secondary plots (slope effects).

The purpose of this work is to help investigators in practical work, especially biologists working with enzymes, to choose quickly an appropriate product inhibition pattern for the identification of the kinetic mechanism. The practical application of above product inhibition analysis was illustrated with three examples of yeast alcohol dehydrogenase-catalyzed reactions.     

Deriving the rate equations for product inhibition patterns in bisubstrate enzyme reactions

In this work, the full rate equations for 17 completely reversible bisubstrate enzyme kinetic mechanisms, with two substrates in the forward and two in the reverse direction, have been presented; among these are rapid equilibrium, steady-state, and mixed steady-state and rapid equilibrium mechanisms. From each rate equation eight product inhibition equations were derived, four for the forward and four for the reverse direction. All the corresponding product inhibition equations were derived in full; thus a total of 17 x 8 = 136 equations, were presented. From these equations a list of product inhibition patterns were constructed and presented in a tabular form, both for the primary plots (intercept effects) and the secondary plots (slope effects). The purpose of this work is to help investigators in practical work, especially biologists working with enzymes, to choose quickly an appropriate product inhibition pattern for the identification of the kinetic mechanism. The practical application of above product inhibition analysis was illustrated with three examples of yeast alcohol dehydrogenase-catalyzed reactions.