Lecture 5: Metabolic Organization and Regulation Dr. AKM Shafiqul Islam 03/03/08.
Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess...
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Transcript of Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess...
![Page 1: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/1.jpg)
Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions
Dr. AKM Shafiqul IslamSchool of Bioprocess Engineering
University Malaysia Perlis08.01.10
![Page 2: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/2.jpg)
Michaelis-Menten Kinetics
• Enzyme E and substrate S combine to form a complex ES, which then dissociates into product P and free or uncombined enzyme E:
![Page 3: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/3.jpg)
Michaelis-Menten Kinetics
• Equilibrium Constant
• Enzyme balance
• Decomposition of the complex to product and free enzyme is irreversible.
• Product formation Rate, v
![Page 4: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/4.jpg)
Michaelis-Menten Kinetics
• Solving the equations
• Substitute e in following equation
esee o
mKk
k
es
se
1
1
sK
sese
m 0
![Page 5: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/5.jpg)
Michaelis-Menten Kinetics
• From Product formation equation
sK
sek
m 0
2
sK
svv
m max
02max Where ekv
![Page 6: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/6.jpg)
Quasi-steady-state Approximation
• Briggs and Haldane first proposed Quasi-steady-state assumption
• Applying mass balance for substrate and intermediate
esksekdt
dsv 11
eskksekdt
esd211
![Page 7: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/7.jpg)
Quasi-steady-state Approximation
• In a batch reactor at closed system [E0] is considered very small compared STherefore, d(es)/dt ≈0
From equation
21
1
kk
sekes
eskksekdt
esd211
![Page 8: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/8.jpg)
Quasi-steady-state Approximation
• Substituting e
Production formation kinetics
s
kkkse
es
1
21
0
eskdt
dp
dt
dsv 2
skkk
sek
121
02
/
![Page 9: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/9.jpg)
Quasi-steady-state Approximation
Substituting
There is difference between Michaelis-Menten and Quasi-steady-state constant.
02max ekv
1
21m and
k
kkK
sK
svv
m max
![Page 10: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/10.jpg)
Evaluation of Parameters in Michaelis-Menten Equation
![Page 11: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/11.jpg)
Lineweaver-Burk plots are convenient for determination of Km
• Double reciprocal plot
![Page 12: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/12.jpg)
Eadie–Hofstee plot
plot v versus v/[S] gives a line of slope –Km and y-axis intercept of Vm
![Page 13: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/13.jpg)
Hanes–Woolf plot
• Plot of [S]/v versus [S] gives line of slope I/Vm and y-axis intercept of Km/Vm.
• This plot is used to determine Vm more accurately.
![Page 14: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/14.jpg)
Modulation and Regulation of Enzyme Activity
• Chemical species other than the substrate can combine with enzymes to alter or modulate their catalytic activity.
• Such substances are called modulators or effectors, may be normal constituents of the cell.
• They enter from the cell's environment or act on isolated enzymes.
![Page 15: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/15.jpg)
Modulation and Regulation of Enzyme Activity
• The combination of an enzyme with an modulator is chemical reaction
• Modulator can be fully reversible, partially reversible, or essentially irreversible.
• Examples of irreversible inhibitors include poisons such as cyanide ions, which deactivate xanthine oxidase,
• Nerve gases, which deactivate cholinesterases (enzymes which are part of nerve transmission).
![Page 16: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/16.jpg)
Modulation and Regulation of Enzyme Activity
• Reversible modulation of enzyme activity is one control mechanism employed by the cell to achieve efficient use of nutrients.
• The enzyme regulation involve interconnected networks of reactions with several control loops
![Page 17: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/17.jpg)
Modulation and Regulation of Enzyme Activity
• Example, five-step sequence for the biosynthesis of the amino acid L-isoleucine. Regulation of this sequence is achieved by feedback inhibition:
![Page 18: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/18.jpg)
Modulation and Regulation of Enzyme Activity
The final product, L-isoleucine, inhibits the activity of the first enzyme. Thus, if the final product begins to build up, the biosynthesis process will be stopped
![Page 19: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/19.jpg)
Modulation and Regulation of Enzyme Activity
• enzyme-substrate inhibitors systems classify by their influence on the Michaelis-Menten equation parameters vmax and Km
• Reversible inhibitors are termed competitive if their presence increases the value of Km but does not alter vmax The effect of such inhibitors can be countered or reversed by increasing the substrate concentration.
• On the other hand, by rendering the enzyme or the enzyme-substrate complex inactive, a noncompetitive inhibitor decreases the vmax of the enzyme but does not alter the Km value.
![Page 20: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/20.jpg)
Mechanisms of Reversible Enzyme Modulation
• Many competitive inhibitors bear close relationships to the normal substrates. This are called substrate analogs. It is thought that these inhibitors have the key to fit into the enzyme active site, or lock, But the key is not quite right so the lock does not work; i.e., no chemical reaction results.
![Page 21: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/21.jpg)
Mechanisms of Reversible Enzyme Modulation
• For example, inhibition of succinic acid dehydrogenation by malonic acid:The malonic acid can complex with succinic dehydrogenase, but it does not react
![Page 22: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/22.jpg)
Mechanisms of Reversible Enzyme Modulation
• How the sulfa-drug act against bacteria?The action of one of the sulfa drugs, sulfanilamide, is due to its effect as a competitive inhibitor.
![Page 23: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/23.jpg)
Mechanisms of Reversible Enzyme Modulation
• Sulfanilamide is very similar in structure to p-aminobenzoic acid, an important vitamin for many bacteria.
By inhibiting the enzyme which causes p-aminobenzoic acid to react to give folic acid, the sulfa drug can block the biochemical machinery of the bacterium and kill it.
![Page 24: Lecture – 4 The Kinetics of Enzyme-Catalyzed Reactions Dr. AKM Shafiqul Islam School of Bioprocess Engineering University Malaysia Perlis 08.01.10.](https://reader035.fdocuments.net/reader035/viewer/2022070412/5697bf831a28abf838c867d1/html5/thumbnails/24.jpg)
• Some noncompetitive inhibition and is thought to be the dominant mechanism for noncompetitive inhibition and activation. These are called allosteric control
• An enzyme which possesses sites for modulation as well as catalysis has consequently been named an allosteric enzyme.