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Enzymes
What Are Enzymes?What Are Enzymes?
Most enzymes are
ProteinsProteins ((tertiary
and quaternary
structures)
Act as CatalystCatalyst to
accelerates a
reaction
Not permanentlyNot permanently
changed in the
process
2
Classes of enzymes
1. Oxidoreductases = catalyze oxidation-
reduction reactions (NADH)
2. Transferases = catalyze transfer of functional
groups from one molecule to another.
3. Hydrolases = catalyze hydrolytic cleavage
4. Lyases = catalyze removal of a group from or
addition of a group to a double bond, or other
cleavages involving electron rearrangement.
5. Isomerases = catalyze intramolecular
rearrangement.
6. Ligases = catalyze reactions in which two
molecules are joined.
Enzymes named for the substrates and type of
reaction
Co-enzymes
• Non-protein molecules that help enzymes
function
• Associate with active site of enzyme
• Enzyme + Co-enzyme = holoenzyme
• Enzyme alone = apoenzyme
• Organic co-enzymes – thiamin, riboflavin,
niacin, biotin
• Inorganic co-enzymes – Mg ++
, Fe++
, Zn++
,
Mn++
E + S ES E + P
k1
k-1
k2
k-2
E S+ E S E + P
Plot Vo vs. [S]
Vo 1 mM
Vo 5 mM
Vo 10 mM
Initial Velocities
[S] = 1 mM
[S] = 5 mM
[S] = 10 mM∆[P]/∆T = Vo10 mM
D[P]/DT = Vo5 mM
D[P]/DT = Vo1 mM
[P]
time
Active SiteActive Site
A restricted regionrestricted region of an enzymeenzyme
molecule which bindsbinds to the
substratesubstrate.
9
Enzyme
Substrate
Active
Site
Induced FitInduced Fit
A change in
the shapeshape of an
enzyme’s active
site
InducedInduced by the
substrate
10
Induced FitInduced Fit
A changechange in the configurationconfiguration of an
enzyme’s activeenzyme’s active sitesite (H+ and ionic
bonds are involved).
InducedInduced by the substratesubstrate..
11
Enzyme
Active Site
substrate
induced fit
• Michaelis-Menton Equation
• Describes rectangular hyperbolic plot
• Vo = Vmax [S]
Km + [S]
Understanding Vmax
The theoretical maximal velocity
• Vmax is a constant
• Vmaxis the theoretical maximal rate of the reaction -
but it is NEVER achieved in reality
• To reach Vmax would require that ALL enzyme
molecules are tightly bound with substrate
• Vmax is an approached as substrate is increased
Understanding Km
The "kinetic activator constant"
• Km is a constant
• Km is a constant derived from rate constants
• Km is, under true Michaelis-Menten conditions, an
estimate of the dissociation constant of E from S
• Small Km means tight binding; high Km means
weak binding
Km = [S] @ ½ Vmax
(units moles/L=M)
(1/2 of enzyme bound to S)
Vmax = velocity where all of the
enzyme is bound to substrate
(enzyme is saturated with S)
What does kcat mean?
1. kcat is the 1st
order rate constant describing ES 
E+P
2. Also known as the turnover # because it describes
the number of rxns a molecule of enzyme can
catalyze per second under optimal condition.
3. Most enzyme have kcat values between 102
and 103
s-1
4. For simple reactions k2 = kcat , for multistep rxns kcat
= rate limiting step
E + S ES E + P
k1
k-1
kcat
What does kcat/Km mean?
• It measures how the enzyme
performs when S is low
• kcat/Km describes an enzymes
preference for different
substrates = specificity constant
• The upper limit for kcat/Km is the
diffusion limit - the rate at
which E and S diffuse together
(108
to 109
m-1
s-1
)
• Catalytic perfection when kcat/Km =
diffusion rate
• More physiological than kcat
Limitations of M-M
1. Some enzyme catalyzed rxns show more complex behavior
E + S<->ES<->EZ<->EP<-> E + P
With M-M can look only at rate limiting step
2. Often more than one substrate
E+S1<->ES1+S2<->ES1S2<->EP1P2<-> EP2+P1<-> E+P2 Must
optimize one substrate then calculate kinetic parameters
for the other
3. Assumes k4 = 0
4. Assume steady state conditions
How do you get values for Vmax, Km and kcat?
• Can determine Km and Vmax experimentally
• Km can be determined without an absolutely
pure enzyme
• Kcat values can be determined if Vmax is known and
the absolute concentration of enzyme is known
(Vmax = kcat[Etotal]
Obtaining Km, Vmax
Lineweaver-Burk plot
Ping-Pong Reactions
E (EA)(FP) (F) (FB)(EQ) E
A BP Q
•In Ping-Pong rxns first product released before
second substrate binds
•When E binds A, E changes to F
•When F binds B, F changes back to E
Enzyme Inhibition
• Inhibitor – substance that binds to an enzyme and
interferes with its activity
• Can prevent formation of ES complex or prevent ES
breakdown to E + P.
• Irreversible, Reversible and Allosteric Inhibition
• Irreversible inhibitor binds to enzyme through covalent
bonds (binds irreversibly)
• Reversible Inhibitors bind through non-covalent interactions
(disassociates from enzyme)
1. Irreversible Inhibitors:
Covalently bind and inactive enzyme
 Suicide Inhibitor
2. Reversible Inhibitors:
E + S <-> ES -> E + P
E + I <-> EI
Ki = [E][I]/[EI]
• Competitive
• Uncompetitive
• Non-competitive
Types of Reversible Enzyme
Inhibitors
3. Allosteric Inhibitor
Allosteric Modulator/effectors
Activator site
Inhibitor site
Classes of allosteric enzyme
1.K-class of allosteric enzyme: km changes
and not V max
2.V-class of allosteric enzyme alter V max not km
Data from a single experiment
performed with at a single [S].
(single point on Vo vs. [S] plot)
Regulation of Enzyme Activity
Enzyme quantity – regulation of gene expression (Response time =
minutes to hours)
a) Transcription
b) Translation
c) Enzyme turnover
Enzyme activity (rapid response time = fraction of seconds)
a) Allosteric regulation
b) Covalent modification
c) Association-disassociation’
d) Proteolytic cleavage of proenzyme
31
Enzyme Used in beverage Manufacturing-
Enzymes are, widely used beverage and brewing industries to
achieve specific objectives:
• Fermentation
• Clarification
• Pectin manufacturing- pecteolytic enzymes
• Brewing industry
• Production of syrup- Takadiastase
• Coffee bean fermentation- pectinase
• High test Mollases- Invertase
• Beer manufacturing-mashing- amylase
• Production of cheese, beer, spirits.
32
Treatment of fruit pulp with pecteolytic enzyme mixture gives the
following benefits:
(i) Elimination of juice/wine cloudiness,
(ii) reduced solution viscosity,
(iii) Increased juice yields, e.g., a 15% increase in
case of white grapes, and
(iv) Shorter fermentation period in case of wine
making. In addition,
(v) pectins stabilize the cell debris in a colloidal
state.
(vi)binding constituents are converting from
polyform to oligoform which is useful for human body.
Application of enzymes in fruit juice manufacturing
33
34
Enzyme Production

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Enzymes class lecture

  • 2. What Are Enzymes?What Are Enzymes? Most enzymes are ProteinsProteins ((tertiary and quaternary structures) Act as CatalystCatalyst to accelerates a reaction Not permanentlyNot permanently changed in the process 2
  • 3. Classes of enzymes 1. Oxidoreductases = catalyze oxidation- reduction reactions (NADH) 2. Transferases = catalyze transfer of functional groups from one molecule to another. 3. Hydrolases = catalyze hydrolytic cleavage 4. Lyases = catalyze removal of a group from or addition of a group to a double bond, or other cleavages involving electron rearrangement. 5. Isomerases = catalyze intramolecular rearrangement. 6. Ligases = catalyze reactions in which two molecules are joined. Enzymes named for the substrates and type of reaction
  • 4.
  • 5. Co-enzymes • Non-protein molecules that help enzymes function • Associate with active site of enzyme • Enzyme + Co-enzyme = holoenzyme • Enzyme alone = apoenzyme • Organic co-enzymes – thiamin, riboflavin, niacin, biotin • Inorganic co-enzymes – Mg ++ , Fe++ , Zn++ , Mn++
  • 6. E + S ES E + P k1 k-1 k2 k-2 E S+ E S E + P
  • 7. Plot Vo vs. [S] Vo 1 mM Vo 5 mM Vo 10 mM
  • 8. Initial Velocities [S] = 1 mM [S] = 5 mM [S] = 10 mM∆[P]/∆T = Vo10 mM D[P]/DT = Vo5 mM D[P]/DT = Vo1 mM [P] time
  • 9. Active SiteActive Site A restricted regionrestricted region of an enzymeenzyme molecule which bindsbinds to the substratesubstrate. 9 Enzyme Substrate Active Site
  • 10. Induced FitInduced Fit A change in the shapeshape of an enzyme’s active site InducedInduced by the substrate 10
  • 11. Induced FitInduced Fit A changechange in the configurationconfiguration of an enzyme’s activeenzyme’s active sitesite (H+ and ionic bonds are involved). InducedInduced by the substratesubstrate.. 11 Enzyme Active Site substrate induced fit
  • 12. • Michaelis-Menton Equation • Describes rectangular hyperbolic plot • Vo = Vmax [S] Km + [S]
  • 13. Understanding Vmax The theoretical maximal velocity • Vmax is a constant • Vmaxis the theoretical maximal rate of the reaction - but it is NEVER achieved in reality • To reach Vmax would require that ALL enzyme molecules are tightly bound with substrate • Vmax is an approached as substrate is increased
  • 14. Understanding Km The "kinetic activator constant" • Km is a constant • Km is a constant derived from rate constants • Km is, under true Michaelis-Menten conditions, an estimate of the dissociation constant of E from S • Small Km means tight binding; high Km means weak binding
  • 15. Km = [S] @ ½ Vmax (units moles/L=M) (1/2 of enzyme bound to S) Vmax = velocity where all of the enzyme is bound to substrate (enzyme is saturated with S)
  • 16. What does kcat mean? 1. kcat is the 1st order rate constant describing ES  E+P 2. Also known as the turnover # because it describes the number of rxns a molecule of enzyme can catalyze per second under optimal condition. 3. Most enzyme have kcat values between 102 and 103 s-1 4. For simple reactions k2 = kcat , for multistep rxns kcat = rate limiting step E + S ES E + P k1 k-1 kcat
  • 17. What does kcat/Km mean? • It measures how the enzyme performs when S is low • kcat/Km describes an enzymes preference for different substrates = specificity constant • The upper limit for kcat/Km is the diffusion limit - the rate at which E and S diffuse together (108 to 109 m-1 s-1 ) • Catalytic perfection when kcat/Km = diffusion rate • More physiological than kcat
  • 18. Limitations of M-M 1. Some enzyme catalyzed rxns show more complex behavior E + S<->ES<->EZ<->EP<-> E + P With M-M can look only at rate limiting step 2. Often more than one substrate E+S1<->ES1+S2<->ES1S2<->EP1P2<-> EP2+P1<-> E+P2 Must optimize one substrate then calculate kinetic parameters for the other 3. Assumes k4 = 0 4. Assume steady state conditions
  • 19. How do you get values for Vmax, Km and kcat? • Can determine Km and Vmax experimentally • Km can be determined without an absolutely pure enzyme • Kcat values can be determined if Vmax is known and the absolute concentration of enzyme is known (Vmax = kcat[Etotal]
  • 21.
  • 22.
  • 23.
  • 24. Ping-Pong Reactions E (EA)(FP) (F) (FB)(EQ) E A BP Q •In Ping-Pong rxns first product released before second substrate binds •When E binds A, E changes to F •When F binds B, F changes back to E
  • 25. Enzyme Inhibition • Inhibitor – substance that binds to an enzyme and interferes with its activity • Can prevent formation of ES complex or prevent ES breakdown to E + P. • Irreversible, Reversible and Allosteric Inhibition • Irreversible inhibitor binds to enzyme through covalent bonds (binds irreversibly) • Reversible Inhibitors bind through non-covalent interactions (disassociates from enzyme)
  • 26. 1. Irreversible Inhibitors: Covalently bind and inactive enzyme  Suicide Inhibitor 2. Reversible Inhibitors: E + S <-> ES -> E + P E + I <-> EI Ki = [E][I]/[EI] • Competitive • Uncompetitive • Non-competitive
  • 27. Types of Reversible Enzyme Inhibitors
  • 28. 3. Allosteric Inhibitor Allosteric Modulator/effectors Activator site Inhibitor site Classes of allosteric enzyme 1.K-class of allosteric enzyme: km changes and not V max 2.V-class of allosteric enzyme alter V max not km
  • 29. Data from a single experiment performed with at a single [S]. (single point on Vo vs. [S] plot)
  • 30. Regulation of Enzyme Activity Enzyme quantity – regulation of gene expression (Response time = minutes to hours) a) Transcription b) Translation c) Enzyme turnover Enzyme activity (rapid response time = fraction of seconds) a) Allosteric regulation b) Covalent modification c) Association-disassociation’ d) Proteolytic cleavage of proenzyme
  • 31. 31 Enzyme Used in beverage Manufacturing- Enzymes are, widely used beverage and brewing industries to achieve specific objectives: • Fermentation • Clarification • Pectin manufacturing- pecteolytic enzymes • Brewing industry • Production of syrup- Takadiastase • Coffee bean fermentation- pectinase • High test Mollases- Invertase • Beer manufacturing-mashing- amylase • Production of cheese, beer, spirits.
  • 32. 32 Treatment of fruit pulp with pecteolytic enzyme mixture gives the following benefits: (i) Elimination of juice/wine cloudiness, (ii) reduced solution viscosity, (iii) Increased juice yields, e.g., a 15% increase in case of white grapes, and (iv) Shorter fermentation period in case of wine making. In addition, (v) pectins stabilize the cell debris in a colloidal state. (vi)binding constituents are converting from polyform to oligoform which is useful for human body. Application of enzymes in fruit juice manufacturing
  • 33. 33