A Comprehensive Enzyme Kinetic Exercise for Biochemistry

Barton, Janice S.

doi:10.1021/ed100816r

Cited by 20 publications

(21 citation statements)

References 16 publications

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“…This method has been mentioned in various books on kinetics, 7,8,9 but without illustrative examples. In this journal nonlinear least squares has been recommended for curve-fitting in general, 10 for fitting the kinetics of two-step reactions, 11,12 for fitting first-order kinetics, 13,14,15,16,17 for fitting enzyme kinetics to the Michaelis-Menten equation, 18,19 for using…”

Section: First-order Kinetics By Nonlinear Least Squaresmentioning

confidence: 99%

Linear or Nonlinear Least-Squares Analysis of Kinetic Data?

Perrin

2017

J. Chem. Educ.

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Abstract. The disadvantages of the usual linear least-squares analysis of first-and second-order kinetic data are described, and nonlinear least-squares fitting is recommended as an alternative. Keywords. Kinetics, Graduate Education/Research, ReactionsA common task in chemical kinetics is to extract the rate constant from the time dependence of concentrations. We first consider a reaction where reactant A is converted to product B, as in eq 1, and where the rate of reaction (rate of product formation or rate of reactant disappearance) is proportional to the concentration of reactant A, as in eq 2. Such a reaction is said to follow firstorder kinetics, because the rate is proportional to only one concentration.Alternatively, the rate may also be proportional to the concentration of another species C with proportionality constant k', as in eq 3. However, if C is a catalyst, so that its concentration remains constant, or if C is in large excess, so that its depletion is negligible, its concentration does not deviate from its initial concentration [C] 0 , and eq 3 can be simplified to eq 2 by setting k'[C] 0 equal to k. Such a reaction is said to follow pseudo-first-order kinetics, and k is often called a rate coefficient, rather than a rate constant, because its value changes with [C] 0 . In either case the solution to eq 2 is given by eq 4, where [A] 0 is the initial concentration of A.

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Section: First-order Kinetics By Nonlinear Least Squaresmentioning

confidence: 99%

Linear or Nonlinear Least-Squares Analysis of Kinetic Data?

Perrin

2017

J. Chem. Educ.

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“…35 Therefore we have considered histidine-based lipopeptides as potential self-assembled organocatalysts for hydrolysis reactions in water. Indeed hydrolysis catalyzed by histidine-related compounds is widely documented in the case of simple esters, [36][37][38][39][40][41][42] phosphoesters, [43][44][45][46][47][48][49][50][51][52] or even DNA. 53,54 As a rst step we initiated this study considering the widely used ester (p-nitrophenyl acetate) as model substrate.…”

Section: Introductionmentioning

confidence: 99%

Synthesis, self-assembly, and catalytic activity of histidine-based structured lipopeptides for hydrolysis reactions in water

2015

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A new series of lipopeptides was designed to study their organocatalytic properties towards ester hydrolysis and the role of their self-assembled structures in catalysis. Synthesis of the catalysts was achieved by grafting fatty chains on tripeptides either at the C-terminal position or at the N-terminal extremity, affording amphiphilic character and self-assembling properties. Insertion of a histidine in the peptide sequence was chosen to bring about organocatalytic activity. Self-organization was evidenced first by the determination of critical aggregation concentrations and then by characterizing the aggregates formed by performing scattering techniques and microscopy. Variation of the structures (peptide sequence, hydrophobic character) led to the formation of various aggregates, from globular objects to fibers. All derivatives containing histidine presented a catalytic activity for the hydrolysis reaction of p-nitrophenyl acetate in aqueous solution. The influence of the self-organization on the catalysis was evidenced by showing different behaviors observed between the monomers and aggregates.

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“…Although very promising, unfortunately there are no published reports of such approaches being taught to undergraduate chemistry and biochemistry students. There are, however, a few interesting educational articles on teaching chemistry/biochemistry students about enzymes and enzyme kinetics . This article describes an experiment that we have developed and successfully used in an undergraduate biochemistry laboratory.…”

Section: Introductionmentioning

confidence: 99%

Raising environmental awareness through applied biochemistry laboratory experiments

Ashraf

2013

Biochem Molecular Bio Educ

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Our environment is under constant pressure and threat from various sources of pollution. Science students, in particular chemistry students, must not only be made aware of these issues, but also be taught that chemistry (and science) can provide solutions to such real-life issues. To this end, a newly developed biochemistry laboratory experiment is described that guides students to learn about the applicability of peroxidase enzymes to degrade organic dyes (as model pollutants) in simulated waste water. In addition to showing how enzymes can potentially be used for waste water remediation, various factors than can affect enzyme-based reactions such as pH, temperature, concentration of substrates/enzymes, and denaturants can also be tested. This "applied biotechnology" experiment was successfully implemented in an undergraduate biochemistry laboratory course to enhance students' learning of environmental issues as well important biochemistry concepts. Student survey confirmed that this laboratory experiment was successful in achieving the objectives of raising environmental awareness in students and illustrating the usefulness of chemistry in solving real-life problems. This experiment can be easily adopted in an introductory biochemistry laboratory course and taught as an inquiryguided exercise.

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A Comprehensive Enzyme Kinetic Exercise for Biochemistry

Cited by 20 publications

References 16 publications

Linear or Nonlinear Least-Squares Analysis of Kinetic Data?

Linear or Nonlinear Least-Squares Analysis of Kinetic Data?

Synthesis, self-assembly, and catalytic activity of histidine-based structured lipopeptides for hydrolysis reactions in water

Raising environmental awareness through applied biochemistry laboratory experiments

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