1.6 Regulation of Metabolic Pathways Flashcards
What is the difference between a catabolic and anabolic pathway?
Anabolism is building up complex molecules from simple ones and catabolic is taking a high energy nutrient and breaking it down into low energy products, from complex to simple
Name this molecule
ATP
Name this molecule
Coenzyme A
What is the equation for Coenzyme A going from a thioester to a thiol?
Where is CoA used in metabolism?
- CoA functions in acyl transfer reactions where X is an acetyl, acetoacetyl or other group which is transferred to another molecule.
- Acetyl-CoA is central to metabolism; used in Krebs cycle, fatty acid synthesis/oxidation etc.
- Acetoacetyl-CoA is used in the switch to “ketone bodies” during starvation
Name this molecule
NAD+ and NADH
What are the different forms of Nicotinamide Adenine Dinucleotide?
- NAD+ is the oxidised form; NADH is the reduced form
- NADP+ and NADPH are phosphorylated forms
How does the wavelength absorbance of NADH compare to NAD+?
Oxidised red curve absorbs light weakly but reduced form absorbs strongly at 340 nm
Name this molecule
FAD or Flavin adenine dinucleotide
What are the different forms of FAD?
FAD is the oxidised form; FADH2 is the (fully) reduced form
What is the equation for cellular respiration?
Glucose + 6O2 → 6CO2 + 6H2O
What is the first reaction of the preparatory phase of glucose?
The phosphorylation of glucose
Where glucose is converted to glucose-6-phosphate
What enzyme catalyses the conversion of glucose to glucose-6-phosphate in the first reaction of the preparatory phase of glycolysis?
- The conversion of glucose to glucose-6-phosphate is catalyzed by HEXOKINASE in most tissues and GLUCOKINASE in the liver.
- First IRREVERSIBLE reaction of GLYCOLYSIS
What can be said about the delta Go of the first reaction in the preparatory phase of glucose?
It has a delta Go of -16.7 kj/mol which means it is favourable under standard conditions, and with there being a high concentration of glucose it is quite favourable
What is the second reaction in the preparatory phase of glycolysis?
It is the isomerisation of glucose-6-phosphate to fructose-6-phosphate
What enzyme is used in the second reaction of the prepatory phase of glucose?
The conversion of glucose-6-phosphate to fructose-6-phosphate is catalysed by phosphohexose isomerase
What can be said about the delta Go of the second reaction of the prepatory phase of glucose?
It has a delta Go of 1.7 which means it is small and positive under standard conditions. In the cell however the reactants have a higher concentration than products
What is the third reaction in the preparatory phase of glycolysis?
- The conversion of fructose-6-phosphate to fructose-1,6-bisphosphate
- It is the addition of a phosphate group replacing the hydroxyl
- Second irreversible reaction of glycolysis and the first commited step of glycolysis (rate limiting)
What is the enzyme that catalyses the third reaction of the preparatory phase of glycolysis?
Phosphofructokinase-1 (PFK-1)
What can be said about the delta Go of the third reaction of the preparatory phase of glycolysis?
The delta Go is -14.2 which is small and negative understandard conditions
This reaction is favourable anyway because the [Fructose 6-phosphate] > [Fructose 1,6-bisphosphate]
What is the 4th reaction of the preparatory phase of glycolysis?
It is the cleavage of fructose 1,6-bisphosphate (F-1,6-bP)
Where adolase cuts the F-1,6-bisP in the middle producing dihydroxyacetone phosphate and glyceraldehyde 3-phosphate, each with a single phosphate attached.
What enzyme catalyses the fourth reaction of the prepatory phase of glycolysis?
Aldolase cuts the F-1,6-bisP in the middle, producing DHAP and GA-3-P, each with a single phosphate attached. The enzyme can catalyze the reverse reaction, which is more favourable & is in fact named after the reverse reaction which is an “aldol condensation”.
What can be said about the delta Go of the fourth reaction in the prepatory phase of glycolysis?
The delta Go is large and positive so under standard conditions not favourable.
But in the cell the concentration of F-1,6-bisP is high and the products of this reaction are removed quickly
What is the fifth reaction in the preparatory phase of glycolysis?
It is the isomerisation of DHAP to glyceraldehyde-3-phosphate
What enzyme is used in the fifth reaction in the prepatory phase of glycolysis?
Triose Phosphate Isomerase pulls a hydrogen atom off one carbon atom and replaces it on a neighboring carbon atom. A special glutamate amino acid in the active site (Glu165) performs the transfer.
What can be said about the delta Go of the fifth reaction in the preparatory phase of glycolysis?
The delta Go is 7.5 kJ/mol which is small and positive but the concentration of the product G3P is low as it is used in the next step so this reaction is favourable
How many ATP are produced during the preparatory phase of glycolysis?
There is a net loss of 2 ATP
What is the sixth reaction in glycolysis?
The oxidation of glyceraldehyde-3-phosphate to 1,3-bisphosphoglycerate.
A phosphate group is added to G3P
Oxidation state of carbon is changed as O is added so couple with a reduction of NAD+
What enzyme catalyses the sixth reaction of glycolysis?
Glyceraldehyde 3-phosphate dehydrogenase
Its activity depends on the turnover of NAD+ in the cytosol of the cell. Rapid turnover of NAD+ is achieved only under anaerobic conditions
What can be said about the delta Go of the sixth reaction of glycolysis?
Delta Go is small and positive but there is lots of incoming reactant and the product is used up so it is favourable
What is the seventh reaction of glycolysis?
Conversion of 1,3-bisphosphoglycerate to 3-phosphoglycerate
The phosphate group is transferred onto ADP in order to make ATP
What enzyme is responsible for the seventh reaction of glycolysis?
Phosphoglycerate kinase transfers the phosphate from 1,3-BPG to ADP to form ATP
What can be said about the delta Go of the seventh reaction of glycolysis?
The Delta Go is large and negative meaning it is very favourable.
But the conversion of ADP and Pi to ATP is very unfavourable so the removal of the phosphate group must be a very favourable reaction, about -50kj/mol
What is the eight reaction of glycolysis?
Mutase reaction converts 3-phosphoglycerate to 2-phosphoglycerate.
Moving the phosphate group to carbon 2
What enzyme catalyses the eighth reaction of glycolysis?
Phosphoglycerate mutase begins the final capture of energy by shifting the phosphate from carbon 3 of the phosphoglycerate molecule to carbon 2 priming it for phosphate transfer to ADP
What can be said about the delta Go of the eighth reaction of glycolysis?
It is 4.4 which is small and positive.
But the pathway favours conversion of reactants to products
What is the ninth reaction in glycolysis?
The dehydration of phosphoglycerate to phosphoenolpyruvate
2-phosphoglycerate is not a very good P donor so we need to make it more unstable and reactive by removing H2O
What is the enzyme that catalyses the ninth reaction of glycolysis?
Enolase is a Mg2+ dependent enzyme that converts 2-PG (which has a relatively low phosphoryl group transfer potential of -17.6 kJ/mol) to PEP (-61.9 kJ/mol).
What can be said about the delta Go of the ninth reaction of glycolysis?
It is 7.5 which is small and positve but reaction pathway favours conversion of reactants to products
What is the tenth reaction in glycolysis?
The production of ATP from the conversion of PEP to pyruvate.
PEP is a phosphate donor to ADP
What is the enzyme that catalyses the tenth reaction of glycolysis?
It is pyruvate kinase
What can be said about the delta Go of the tenth reaction of glycolysis?
It is -31.4
Production of ATP is not very favourable so the reaction of converting PEP to pyruvate must be very favourable ~ 60kj/mol
What is the overall stoichiometry of glycolysis?
How can glycolysis be used to detect cancer?
- Glycolysis occurs at a rate 10x faster in cancer cells, so some drugs inhibit hexokinase
- The high glycolytic turnover in cancer cells is also used for diagnosis by injecting isotopically labelled glucose (18FdG 6-phospho-18FdG) followed by PET scanning.
What is the warburg hypothesis?
Otto Warburg proposed that most cancer cells produce energy by anaerobic glycolysis rather than by oxidation of pyruvate in the mitochondria (which is common to healthy cells). This is known as the “Warburg Hypothesis”.
What is gluconeogenesis?
metabolic pathway that results in the generation of glucose from certain non-carbohydrate carbon substrates.
What three irreversible steps in glycolysis have to be catalysed by different enzymes in gluconeogenesis?
- Conversion of pyruvate to PEP occurs via oxaloacetate by using mitochondrial pyruvate carboxylase and cytosolic PEP carboxykinase
- Conversion of F-1,6-bisP to F-6-P is catalyzed by fructose 1,6-bisphosphatase
- Conversion of G-6-P to glucose occurs in the ER lumen using Glucose-6-Phosphatase
What is the first irreversible step of glycolysis that gluconeogenesis must overcome?
A bicarbonate group is added to pyruvate which becomes oxaloacetate
What enzyme catalyses the formation of oxaloacetate in the first step of gluconeogenesis?
Pyruvate Carboxylase is a mitochondrial enzyme that adds a carboxylic acid to pyruvate to form oxaloacetate using BIOTIN (vitamin B7) as a cofactor.
How does oxaloacetate end up being PEP in the gluconeogenesis?
PEP carboxinase reacts oxaloacetate with GTP to generate PEP and also releases the GDP and CO2 which it used before
What is the second reaction in gluconeogenesis that is an alternative to the irreversible reaction in glycolysis?
Fructose 1,6-bisphosphate is converted to fructose 6-phosphate by FBPase-1 (fructose-1,6-bisphosphatase)
The phosphate group is snipped off and that bond is hydrolysed
What can be said about the delta G of the reaction in gluconeogenesis converting fructose 1,6-bisphosphate to fructose 6-phosphate?
It is -16.3 kj/mol which is moderately sized and negative
Hydrolysis of phosphate groups are generally energetically favourable
What is the third reaction in gluconeogenisis that overcomes an irreversible step of glycolysis?
- Glucose-6-phosphate is converted to glucose by glucose-6-phosphatase and this occurs in the lumen of ER in hepatocytes of the liver and in the cortex of the kidney
- G6P generated in cytosol is moved into lumer of the ER where enzyme snips off P to make free glucose again, this glucose exported out via same transporter that bought it in
What are the 5 major fates of pyruvate?
What is the reaction for fermentation starting with pyruvate?
What happens in anaerobic glyclysis?
Pyruvate is converted to L-lactate by lactate dehydrogenas in the muscles
Pyruvate is reduced and NADH is oxidised
Why is anaerobic glycolysis and important step for glycolysis?
Because conversion of pyruvate to l-lactate produces NaD+ and this is needed in step 6 of glycolysis
What is acidosis?
When there are high amounts of lactic acid in the tissues
What is the cori cycle?
What is the percentage composition of energy stores in humans?
What is glycogenolysis and what enzymes does it involve?
What is glyogenesis and what enzymes does it involve?
What is the role of glycogen phosphorylase in glycogenolysis?
- Glycogen phosphorylase chops off the terminal non reducing sugar
- Uses phosphate as a tool to chop the bond and phosphate is left on the leaving unit
- It cannot join glycolysis as it is not glucose 6 phosphate