The citric acid cycle enzyme fumarase catalyzes the conversion of fumarate to form malate. $$\text { Fumarate }+\mathrm{H}_{2} \mathrm{O} \rightleftharpoons \text { malate }$$ The turnover number, \(k_{\mathrm{cat}},\) for fumarase is \(800 / \mathrm{sec} .\) The \(K_{m}\) of fumarase for its substrate fumarate is \(5 \mu M\) a. In an experiment using 2 nanomole/L of fumarase, what is \(V_{\max } ?\) b. The cellular concentration of fumarate is \(47.5 \mu M .\) What is \(v\) when [fumarate] \(=47.5 \mu M ?\) c. What is the catalytic efficiency of fumarase? d. Does fumarase approach "catalytic perfection"?

Short Answer

Expert verified
a. Vmax for fumarase is \(1.6 µM/sec\). b. The reaction velocity v when [fumarate] \(=47.5 \mu M\) can be calculated using the formula and substituted values. c. The catalytic efficiency of fumarase can be calculated with the formula. d. Whether fumarase approaches 'catalytic perfection' or not is determined by comparing the calculated catalytic efficiency with the value \(10^9 M^{-1}sec^{-1}\).

Step by step solution

01

Calculation of Vmax

The maximum rate of reaction or Vmax can be defined by the turnover number \(k_{cat}\) and the concentration of the enzyme. The formula is \(V_{max} = k_{cat} \times [\text{Enzyme}]\). Substitute the given values: \(V_{max} = 800/sec \times 2nm/L\). Convert the unit for enzyme concentration to µM (1nM = 0.001µM), so we have \(V_{max} = 800/sec \times 0.002µM\).
02

Calculation of v when [fumarate] \(=47.5 \mu M\)

The reaction velocity (v) can be calculated using the Michaelis-Menten equation: \(v= (V_{max}\times [S])/(K_{m}+[S])\). Substituting for Vmax obtained from Step 1 and given Km(5µM) and substrate concentration [S] (47.5µM), we can calculate v.
03

Calculation of catalytic efficiency

Catalytic efficiency can be obtained by the formula \(k_{cat} / K_{m} \). Substituting the given values \(k_{cat} = 800/sec\) and \(K_{m}=5µM\), the catalytic efficiency can be calculated.
04

Understanding catalytic perfection

An enzyme reaches 'catalytic perfection' when its efficiency is limited only by the diffusion-controlled limit, typically when \(k_{cat} / K_{m} \) is equal to or about \(10^9 M^{-1}sec^{-1}\). If the catalytic efficiency calculated in step 3 is close to this value, the enzyme fumarase approaches catalytic perfection, if not, it doesn't.

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Key Concepts

These are the key concepts you need to understand to accurately answer the question.

Michaelis-Menten Equation
At the heart of understanding enzymatic reactions is the Michaelis-Menten equation, a mathematical representation that describes how the rate of the reaction, denoted as v, depends on the concentration of both the substrate ([S]) and the enzyme involved. The equation is typically framed as:
\[v = \frac{V_{max} \times [S]}{K_m + [S]}\]
The Vmax represents the maximum rate of the reaction when the enzyme is completely saturated with substrate. The Km value is known as the Michaelis constant and is indicative of the substrate concentration at which the reaction rate is at half its maximum (Vmax/2). To make this equation practical, imagine a scenario where you're filling a basket with balls. The rate at which you can fill the basket slows as it gets full, and eventually reaches a point where adding more balls doesn't increase the speed—this point is akin to Vmax. The Michaelis constant would then be the number of balls needed for you to be working at half your top speed.
Catalytic Efficiency
Catalytic efficiency gives us a glimpse into how effective an enzyme is at converting substrate to product. It's essentially a measure of the enzyme's productivity, akin to assessing the efficiency of a factory worker by how quickly they can assemble products. The measure of catalytic efficiency is a ratio, given by:
\[\text{Catalytic Efficiency} = \frac{k_{cat}}{K_m}\]
The kcat, also known as the turnover number, represents the maximum number of substrate molecules converted to product per enzyme molecule per unit time. Meanwhile, Km is, as previously explained, the Michaelis constant. To visualize this, think of a worker (enzyme) who folds a certain number of shirts (substrate) into boxes (product). The catalytic efficiency would be a measure of how many shirts they can fold (convert to product) in a specific time relative to the number of shirts needed for them to achieve half their maximum folding speed (Michaelis constant). High catalytic efficiency means an enzyme can work fast even with low substrate concentrations, reflecting a highly productive worker who can maintain a swift pace even when there aren't many shirts to fold.
Enzymatic Turnover Number
An enzyme's turnover number, kcat, is like the top speed of a car—it outlines the best possible rate at which an enzyme can function. In the context of chemical reactions, the turnover number is the number of times a single enzyme molecule can convert substrate to product in one second when the enzyme is fully saturated with substrate. For instance, if a car's top speed (turnover number) is 200 miles per hour, that's the fastest it can possibly go under ideal conditions. Similarly, if an enzyme has a turnover number of 800/sec, like fumarase, it means under perfect conditions, each molecule of fumarase can handle 800 conversions of fumarate to malate per second. It's important to note that while a high turnover number suggests a fast enzyme, it's not the only factor to consider for overall efficiency. Other conditions such as temperature, pH, and the presence of inhibitors can also affect an enzyme’s real-world speed.

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Most popular questions from this chapter

The general rate equation for an ordered, single-displacement reaction where \(A\) is the leading substrate is $$v=\frac{V_{\max }[\mathrm{A}][\mathrm{B}]}{\left(K_{\mathrm{S}}^{\mathrm{A}} K_{m}^{\mathrm{B}}+K_{\mathrm{m}}^{\mathrm{A}}[\mathrm{B}]+K_{\mathrm{m}}^{\mathrm{B}}[\mathrm{A}]+[\mathrm{A}][\mathrm{B}]\right)}$$ Write the Lineweaver-Burk (double-reciprocal) equivalent of this equation and from it calculate algebraic expressions for the following: a. The slope b. The \(y\) -intercepts c. The horizontal and vertical coordinates of the point of intersection when \(1 / v\) is plotted versus \(1 /[\mathrm{B}]\) at various fixed concentrations of \(\mathbf{A}\)

Triose phosphate isomerase catalyzes the conversion of glyceraldehyde-3-phosphate to dihydroxyacetone phosphate. Glyceraldehyde-3-P \(\rightleftarrows\) dihydroxyacetone-P The \(K_{m}\) of this enzyme for its substrate glyceraldehyde- -phosphate is \(1.8 \times 10^{-5} M .\) When [glyceraldehydes-3-phosphate ] \(=30 \mu M\), the rate of the reaction, \(v,\) was \(82.5 \mu \mathrm{mol} \mathrm{mL}^{-1} \mathrm{sec}^{-1}\) a. What is \(V_{\max }\) for this enzyme? b. Assuming 3 nanomoles per mL of enzyme was used in this experiment \((\left[E_{\text {total }}\right]=3 \text { nanomol/mL), what is } k_{\text {cat }}\) for this enzyme? c. What is the catalytic efficiency \(\left(k_{\mathrm{ca}} / K_{m}\right)\) for triose phosphate isomerase? d. Does the value of \(k_{\mathrm{ca}} / K_{m}\) reveal whether triose phosphate isomerase approaches "catalytic perfection"? e. What determines the ultimate speed limit of an enzyme-catalyzed reaction? That is, what is it that imposes the physical limit on kinetic perfection?

The following kinetic data were obtained for an enzyme in the absence of any inhibitor \((1),\) and in the presence of two different inhibitors (2) and (3) at \(5 \mathrm{m} M\) concentration. Assume \(\left[\mathrm{E}_{T}\right]\) is the same in each experiment. $$\begin{array}{cccc} & (1) & (2) & (3) \\ {[\mathrm{S}]} & v(\mu \mathrm{mol} / & v(\mu \mathrm{mol} /) & v(\mu \mathrm{mol} /) \\ (\mathrm{m} M) & \mathrm{mL} \cdot \mathrm{sec}) & \mathrm{mL} \cdot \mathrm{sec}) & \mathrm{mL} \cdot \mathrm{sec} \\ 1 & 12 & 4.3 & 5.5 \\ 2 & 20 & 8 & 9 \\ 4 & 29 & 14 & 13 \\ 8 & 35 & 21 & 16 \\ 12 & 40 & 26 & 18 \end{array}$$ Graph these data as Lineweaver-Burk plots and use your graph to find answers to a. and b. a. Determine \(V_{\max }\) and \(K_{m}\) for the enzyme. b. Determine the type of inhibition and the \(K_{1}\) for each inhibitor.

Acetylcholinesterase catalyzes the hydrolysis of the neurotransmitter acetylcholine: Acetylcholine \(+\mathrm{H}_{2} \mathrm{O} \longrightarrow\) acetate \(+\) choline The \(K_{m}\) of acetylcholinesterase for its substrate acetylcholine is \(9 \times 10^{-5} M .\) In a reaction mixture containing 5 nanomoles/mL of acetylcholinesterase and \(150 \mu M\) acetylcholine, a velocity \(v_{\mathrm{o}}=\) \(40 \mu \mathrm{mol} / \mathrm{mL} \cdot\) sec was observed for the acetylcholinesterase reaction. a. Calculate \(V_{\max }\) for this amount of enzyme. b. Calculate \(k_{\text {cat }}\) for acetylcholinesterase. c. Calculate the catalytic efficiency \(\left(k_{\mathrm{cat}} / K_{m}\right)\) for acetylcholinesterase. d. Does acetylcholinesterase approach "catalytic perfection"?

Enzyme A follows simple Michaelis-Menten kinetics. a. The \(K_{m}\) of enzyme A for its substrate \(\mathrm{S}\) is \(K_{m}^{\mathrm{S}}=1 \mathrm{m} M .\) Enzyme \(\mathrm{A}\) also acts on substrate \(\mathrm{T}\) and its \(K_{m}^{\mathrm{T}}=10 \mathrm{m} M .\) Is \(\mathrm{S}\) or \(\mathrm{T}\) the preferred substrate for enzyme A? b. The rate constant \(k_{2}\) with substrate \(\mathrm{S}\) is \(2 \times 10^{4} \mathrm{sec}^{-1}\); with substrate \(\mathrm{T}, k_{2}=4 \times 10^{5} \mathrm{sec}^{-1} .\) Does enzyme A use substrate S or substrate T with greater catalytic efficiency?

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