Unit 1.4 - Biological reactions are regulated by enzymes Flashcards
What is the shape of an enzyme and why?
3D spherical, globular shape
Polypeptide chain is folded back on itself
Which protein structure do enzymes have?
Tertiary
What causes the 3D spherical globular shape of an enzyme?
Polypeptide chain folding back on itself
What does the polypeptide chain folding back on itself cause for an enzyme?
Gives it its 3D spherical globular shape
What combines with an enzymes active site to form a product?
Substrate molecules
What do substrate molecules combine with on an enzyme to form a product?
Active site
What happens when a substrate combines with the active site of an enzyme?
A product forms
What can enzymes be described as?
Biological catalysts
What does the fact that enzymes are biological catalysts mean?
They speed up the rate of chemical reactions without undergoing permanent change
What number is high for enzymes?
High turnover number
High turnover number
Enzymes work efficiently to convert many substrate molecules of substrate into product per unit time
What does the fact that enzymes work efficiently to convert many substrate molecules of substrate into product per unit time mean?
They have a high turnover number
Why do enzyme reactions need to happen quickly?
To respond to changes in Environment
What do changes in Environment mean that enzymes have to?
Enzyme reactions need to happen quickly to respond to these changes
Where can enzymes react?
Inside or outside of the cell
Enzymes that react inside the cell
intracellular
Intercellular enzymes
Are synthesised and are active within the cell
Enzymes that act outside the cell
Extracellular
Extracellular enzymes
Synthesised within cells but are active outside
What’s similar and different between intercellular and extracellular enzymes?
Both - are synthesised within cells
Intercellular - are active inside the cell
Extracellular - are active outside the cell
Extracellular enzyme example
Digestive enzymes
What are digestive enzymes an example of?
Extracellular enzymes
Example of intercellular enzymes
Enzymes of respiration
What are enzymes of respiration examples of?
Intercellular enzymes
What is required in order for a reaction to occur?
Activation energy
What is activation energy required for?
A reaction to occur
What do enzymes enable reactions to do?
Occur at lower activation energies, so that they can occur at high rates even at relatively low temperatures
What do enzymes do to the activation energy of a reaction and what does this mean?
Lower the activation energy of a reaction
Chemical reactions can occur at high rates even at relatively low temperatures
Why is a reaction having a low activation energy good?
It can occur at high rates even at relatively low temperatures
What causes a chemical reaction to occur at high rates even at relatively low temperatures?
Enzymes lowering the activation energy of a reaction
Metabolism
All reactions that occur in the body
What’s the name for all reactions that occur in the body?
Metabolism
What do metabolism reactions occur in?
Sequences called metabolic pathways
Metabolic pathways
Metabolism reactions occur in these sequences
What are two types of metabolic reactions?
Anabolic
Catabolic
What are anabolic and catabolic reactions examples of?
Metabolic reactions
Anabolic reactions
Building up molecules
Type of reaction for building up molecules
Anabolic
Catabolic reactions
Molecules are broken down
Type of reaction when molecules are broken down
Catabolic
2 examples of anabolic reactions
Protein synthesis (amino acids in a chain form a polypeptide)
Condensation
What is protein synthesis an example of?
An anabolic reaction
What is condensation an example of?
An anabolic reaction
2 examples of catabolic reactions
Digestion
Hydrolysis
What is digestion an example of?
A catabolic reaction
What is hydrolysis an example of?
A catabolic reaction
What happens to the products of enzyme-controlled reactions?
Become a reactant in the next reaction
What is the reactant of an enzyme-controlled reaction?
A product of a different enzyme-controlled reaction
What type of reaction uses products to become reactants in the next reaction?
Enzyme-controlled reactions
Name three parts involved in a simple metabolic pathway
Substrate
Intermediate
Product
Example of a metabolic pathway
Glycolysis
What’s glycolysis an example of?
A metabolic pathway
Glycolysis
The start of cellular respiration - the way cells release energy
What’s glycolysis?
The start of cellular respiration - the way cells release energy
(Example of a metabolic pathway)
Which process is the start of cellular respiration - the way cells release energy?
Glycolysis
What do metabolic reactions occur as?
A series of small steps
What occurs in a series of small steps?
Metabolic reactions
What is each step in a metabolic reaction?
A reaction catalysed by an enzyme due to the active site containing reactive molecules
Is each step of a metabolic reactions catalysed by the same enzyme?
No - a different enzyme (lots of different types in the cell)
What do different enzymes within a cell do?
Catalyse different steps within the metabolic reaction
What does each individual enzyme react with?
A particular substrate molecule
How can we describe each individual enzyme?
Specific (to a particular substrate molecule)
What does the fact that enzymes react to a particular substrate molecule make it?
Specific
Why are enzymes specific?
Each one reactions with a particular substrate molecule
Describe the relationship between the shape of the active site and a substrate molecule
Complementary (not the same!)
What shape is the active site of an enzyme?
3D and globular
Is an active site’s shape the same as the substrate molecule?
No - its complementary
What’s the 3D globular shape of the active site of an enzyme maintained by?
Tertiary protein bonding
What is maintained by tertiary bonding on an enzyme?
The 3D globular shape of the active site
What’s the first stage to how enzymes work?
Substrate and enzyme collide successfully
What happens once a substrate has collided successfully with an enzyme?
Substrate fits into and binds to the active site by interactions with R groups/polar atoms of the amino acids that make up the active site to form an enzyme-substrate complex
How is an enzyme-substrate complex formed?
When the substrate fits into and binds to the active site of an enzyme by interactions with R groups/polar atoms of the amino acids that make up the active site
What forms when a substrate has bonded to the active site of an enzyme?
Enzyme-substrate complex
What makes up the active site of an enzyme?
R groups/polar atoms of amino acids
How does a substrate bind to the active site of an enzyme?
Interactions with R groups/polar atoms of the amino acids that make up the active site
Which part of the enzyme do we call the enzyme-substrate complex?
The entire enzyme, with the substrate binded to it
What is the ability of R groups and the substrate to form bonds affected by?
Temperature and pH
What does temperature and pH affect the ability of?
R groups and the substrates ability to form bonds
How are the bonds in the substrate broken in the active site of an enzyme?
They’re distorted, which puts strain on the bonds that are going to be broken and increase the chance that they’ll break
What are distorted in order to put strain on the so that they break?
The bonds in a substrate
What does breaking the bonds of a substrate do?
Brings new atoms in the substrates closer together so that new bonds can form
How do new bonds form within the substrate to form a product?
Breaking the bonds brings new atoms in the substrates closer together so that new bonds an form
What are the two theories of enzyme action?
Lock and key hypothesis
Induced fit model
What does the original enzyme hypothesis suggest?
The lock and key hypothesis suggests there’s an exact fit between the substance and the active site of an enzyme
Which enzyme hypothesis suggests there’s an exact fit between the substance and the active site of an enzyme?
Lock and key hypothesis
What’s the lock and key hypothesis supported by?
X-ray diffraction studies of enzyme molecules
What has X-ray diffraction studies of enzyme molecules supported?
The lock and key hypothesis
What type of metabolic reaction is an enzyme turning a substrate into a product? Why?
Anabolic - it involves enzyme building
What are the two types of complex generated during an enzyme catalysing a substrate?
- Enzyme-substrate complex
- Enzyme-product complex
Where does a substrate react and form a product?
Whilst still in the active site
What holds the substrate molecule and why?
The active site of the enzyme to release activation energy and speed up the process
Anabolic enzymes
Build larger products from smaller substrate molecules
Which type of enzymes build larger products from smaller substrate molecules?
Anabolic enzymes
Catabolic enzymes
Break large substrate molecules into smaller products
What type of enzymes break large substrate molecules into smaller products?
Catabolic enzymes
What happens with the induced fit model?
The enzyme molecule changes shape as the substrate molecules get close - the change in shape is ‘induced’ by the approaching substrate molecule
What changes shape in the induced fit model and how?
The enzyme molecule, as it’s “induced” by the approaching substrate molecule
What does the induced fit model rely on?
The fact that molecules are flexible because single covalent bonds are free to rotate
Why are molecules flexible?
Single covalent bonds are free to rotate
What does the induced fit model explain?
The ability of some enzymes that have a wide range of specificy, that can catalyse more than one substrate, due to the ability of the substrates to mould it
What does the fact that some enzymes can catalyse more than one substrate give them?
A wide range of specificy
Why do some enzymes ave a wide range of specificy?
They can catalyse more than one substrate due to the ability of the substrates to mould it
Two examples of enzymes with broad specificy
Lipase
Lysozyme
What are lipase and lysozyme examples of?
Enzymes with broad specificy
Where’s lipase found?
saliva, stomach, pancreas
What’s found in the saliva, stomach and pancreas?
The enzyme lipase
What does the enzyme lipase do?
Breaks down fats in food so that they can be absorbed in the intestines
Which enzyme breaks down fats in food so that they can be absorbed in the intestines?
Lipase
Where is the enzyme lysozyme found?
Tears
Saliva
How does lysozyme work?
Cleaves the peptidoglycan component of bacterial cell walls
Binds to and breaks down the polysaccharide coating of a bacterial cell, leading to cell death
Which enzyme binds to and breaks down the polysaccharide coating of a bacterial cell, leading to cell death?
Lysozyme
How is lysozyme an example of an enzyme with a wide range of specificy and therefore backs up the induced fit model?
The bacterial cells being destroyed have a wide range of cell walls and structures, so the induce fit model could explain this broad specificy
Lysozymes break down bacteria, yet they have a wide range of cell walls and structures, so which model explains this?
The induced fit model, as this could explain the broad specificity of the lysozyme enzyme
What are the Environmental factors that effect the rate of enzyme catalysed reaction?
Temperature
pH
Substrate concentration
Enzyme concentration
What do the environmental factors - temperature, pH, substrate concentration and enzyme concentration - effect?
the rate of enzyme catalysed reaction
What happens between 0 degrees and optimum temperature in terms of enzyme catalysed reaction?
Increasing kinetic energy
Molecules move about me quickly
More collisions between them
Probability of successful collisions between the substrate and the active site of the enzyme to catalyse the reaction and form enzyme-substrate complexes/products increases
What do higher temperatures give enzymes and what does this cause?
Kinetic energy - molecules more about more quickly and there’s more collisions between them
The probability of successful collisions between substrate and the active site of the enzyme to catalyse the reaction and form an enzyme-substrate complex increases
What is formed following successful collision between an enzyme and a substrate?
An enzyme-substrate complex
What causes an enzyme-substrate complex to form?
Successful collisions between enzymes and substrates
What happens to the enzyme above optimum temperature?
High kinetic energy causes irreversible changes to the shape of the active site
When are irreversible changes caused to the active site of an enzyme and what causes this?
When temperatures go above optimum for that enzyme
Kinetic energy
How is irreversible damage caused to the shape of the active site of an enzyme in temperatures above optimum?
High kinetic energy causes atoms to vibrate which breaks bonds
At which point are irreversible changes caused to the shape of an enzyme’s active site?
Past optimum for that enzyme
How are the bonds in an enzyme’s active site broken?
When temperatures rise above optimum for that enzyme, and kinetic energy causes atoms to vibrate and this breaks the bonds
Which bonds are broken on an enzyme’s active site when temperatures rise above optimum for that enzyme?
The bonds which maintain the tertiary structure of the enzyme
Hydrogen bonds, ionic bonds, disulphide bonds (covalent)
When are the bonds which maintain the tertiary structure of an enzyme broken?
When temperatures rise above optimum for that enzyme
What happens when the bonds which maintain the tertiary structure of an enzyme are broken?
The substrate cannot fit into the active site (is no longer complementary) - the enzyme cannot continue to catalyse the reaction and has been denatured
When has an enzyme been denatured?
When the temperatures have risen above optimum for that enzyme and the bonds which maintain the tertiary structure of the enzyme have been broken
What happens to a substrate molecule when approaching the active site of an enzyme that has been denatured?
Substrate molecule cannot fit into the active site
Enzyme cannot continue to catalyse the reaction and has been denatured
Describe the active site of an enzyme when a substrate molecule can no longer fit into it due to it being denatured
No longer complementary
What’s it important to always refer to when giving reasons for why an enzyme catalysed reaction has been effected in a certain way?
Kinetic energy
Collisions
Enzyme-substrate complexes/products
What’s the order in which the bonds break in the tertiary structure of an enzyme? Why?
Hydrogen bonds (weakest)
Ionic bonds
Disulphide bonds (covalent - strongest)
Which is the strongest of the bonds in the tertiary protein structure? Why?
Disulphide bonds, which are covalent
Which of the bonds in the tertiary protein structure are weakest?
Hydrogen bonds
Which enzymes tend to be more stable at high temperatures?
Enzymes with lots of disulphide bonds
What do enzymes with lots of disulphide bonds tend to be more than other enzymes? Why?
More stable at higher temperatures - strongest of the bonds in tertiary protein structure
What happens in terms of enzyme catalysed reaction when the temperatures are relatively low?
Product is formed slowly due to low kinetic energy
Fewer vibrations of substrates and enzymes
Less frequent collisions between substrates and active sites to form enzyme-substrate complexes
Enzyme activity is low
Maximum product formation axes time to achieve
Under which conditions does the maximum product formation take time to achieve and why?
Low temperatures
Low kinetic energy = fewer vibrations of substrates and enzymes
Less frequent collisions between substrates and active sites to enzyme-substrate complexes
Enzyme activity is low
Under which conditions is enzyme activity low and why?
Lower temperatures - low kinetic energy
What does low kinetic energy levels due to low temperatures mean in terms of the formation of enzyme-substrate complexes? Why?
Less frequent collisions between substrates and active sites to form enzyme-substrate complexes
What is pepsin and what does it do?
An enzyme that catalyses the break down of proteins in the stomach, where pH is very acidic
Which enzyme catalyses the break down of proteins in the stomach, where pH is very acidic?
Pepsin
Describe the pH of the stomach
Very acidic
What is salivary amylose and what does it do?
A type of enzyme that digests starch to maltose in the mouth (works at a pH slightly higher than 7)
At which pH does salivary amylose work?
Slightly higher than 7
Which enzyme works at a pH slightly higher than 7?
Salivary amylose
Which enzyme digests starch to maltose in the mouth?
Salivary amylose
What type of environment do enzymes always work in?
Solution
Describe the pH range which enzymes have
Very narrow
Do all enzymes have the same pH optima?
No - they all have very different pH ranges which they work in
What explains the fact that the digestive system has different regions?
All enzymes have very different pH ranges which they work in/pH optima