01 Bioenergetics Flashcards
Describe what is meant by the term glycolysis and what it is the initial component of?
“lysis” = breaking, of glucose.
Aerobic metabolism
Describe the process and products of aerobic and anaerobic metabolism
Aerobic - pyruvate
Anaerobic - “fermentation” and produces lactate or ethanol
What is the end product of glycolysis? (energy and molecule)
2 net ATP and pyruvate
State what products are formed at each of the 10 steps in glycolysis
- Glucose
- Glucose-6-phosphate
- Fructose-6-phosphate
- Fructose-1,6-bisphosphate
- GAP (glyceraldehyde-3-phosphate) / DAP (dihydroxyacetone phospahte)
- 1,3-bisphosphoglycerate
- 3-phosphoglycerate
- 2-phosphoglycerate
- phosphoenolpyruvate
- Pyruvate
What steps is ATP invested and produced in glycolysis?
ATP invested in 1-2 (glucose to glucose-6-phosphate) and in 3-4 (fructose-6-phosphate to fructose-1,6-bisphosphate)
ATP produced in 6-7 (1,3-bisphosphoglycerate to 3-phosphoglycerate) and 9-10 (phosphoenolpyruvate to pyruvate)
Name the 5 properties of water
- powerful solvent
- polarity attracts positive and negative charges
- forms barriers with hydrophobic molecules (lipids —> membranes)
- allows/drives structure and shape of molecules, base pairing of DNA
- transports substrates
How did life’s chemistry most likely begin?
- interactions on the surface of rocks and clays
- high temperatures driving reactions
Explain the relevance of Miller and Urey’s findings
- recreating the environment in which earth was created
- amino acids and metabolites could from
- life likely started from an abundance of organic molecules and elements
How are polymers formed?
dehydration
What are the basic subunits of polymers called?
monomers
Name the 4 types of polymers
lipids, polysaccharides, proteins and nucleic acids
How does the presence of polymers tell us where life started?
polymers are the basic structural units of macromolecules, and life requires macromolecules
What is the initial building block of a lipid called?
acetate
What makes fatty acids amphipathic?
addition of phosphate
Name the three functions of lipids
- energy storage
- structural molecules (membranes)
- steroid hormones
Name the subunits of a fat/ triglyceride molecule and state the bond between them
- glycerol, 3 fatty acid chains
- ester linkage
What is the difference between saturated and unsaturated fatty acids?
- saturated - all carbons are bonded to hydrogen in the FA chain, no kinks, pack closely together
- unsaturated - kinks, hard to rotate, cant pack close together
What is the structure of a phospholipid and what makes this special in terms of beginning of life?
2 fatty acid chains, glycerol and a phosphate linked group - hydrophilic and hydrophobic regions - make micelle - first from of replication
What is a different name for disaccharide?
oligosaccharide
What is the name of the bond in polysaccharides?
glycosidic linkages
What is the function of polysaccharides?
energy storage and structure
Name the two main polysaccharides for energy storage
glycogen and starch
Name the two main polysaccharides for structure
Chitin and cellulose
State a structural difference between glycogen and starch and why this is of significance
- starch has fewer branches, glycogen has extensive branching.
- the branching in glycogen is due to the fact that humans move a lot more and need to pack in more glycogen for energy storage and fuel
Where is glycogen stored?
liver and muscle
State the bonding type in glycogen and starch and its significance
alpha 1-4 bond, flexible and can move
State the bonding in cellulose and chitin and its significance
beta 1-4 - cannot rotate
What are nucleic acids?
they form DNA and RNA
What is the structure of a polynucleotide?
phosphate group, pentose sugar and a nitrogenous base
What bond is in polynucleotides?
phosphodiester bond
What do nucleic acids and proteins have in common structurally
they are composed of variating monomers
What 2 structural units in nucleic acids can differ, explain the difference
- nitrogenous bases: can be purines or pyrimidines (Purines - larger AG and Pyrimidines - smaller CTU)
- phosphate sugar: deoxyribose or ribose sugar
Breakdown is a _______ process
catabolic
Build up is an _______ process
anabolic
Describe the breakdown of ATP and how it provides energy
ATP breaks down into ADP and Phosphate. This releases energy and can fuel other reactions
How does ADP turn into ATP?
through digestion and the breakdown of molecules, providing energy to turn ADP back to ATP. this is exergonic
What is the difference between and endergonic and exergonic reaction?
exergonic reactions release energy whilst endergonic reactions require energy input
State the 4 exit pathways of heat during food consumption
- digestion and absorption
- cellular respiration
- biosynthesis
- cellular work
State two ways in which energy is lost during food consumption
through feaces (undigested material such as cellulose) and through nitrogenous waste in urine
What macromolecule releases the most energy and which one the least ?
fats release the most, carbohydrates release the least
Which molecule is key to the synthesis of ATP and describe pathway?
- acetyl coa
- macromolecules broken down to micro nutrients, these make acetyl coa, acetyl coa feeds into citric acid cycle, the electron transport chain which generates ATP
Why is fat the most efficient molecule to release energy?
easier for enzymes to get to the C-H and C-OH bonds instead of C-C bonds.
Why is ATP the source of energy? (selected for)
most stable in water and water is essential to life
Why is ATP the source of energy? (selected for)
most stable in water and water is essential to life
What part of ATP carries the energy and explain how?
- phosphate
- phosphates joined together repel each other making the charges move to different sides (push away) - energy in the molecule, wants to break off
What makes ATP more powerful?
when the phosphates attract calcium or magnesium. it changes how the charges interact and gives the terminal phosphate more charge
Define Gibbs free energy
amount of energy that can be liberated from things - how much work we can do
What is the formula for Gibbs free energy?
Gibbs free energy = Δenthalpy - (temperature x Δentropy)
Why does a reaction with -ve gibbs free energy happen more spontaneously?
reaction is releasing energy, it is exergonic compared to a +ve gibbs value where energy must be supplied for the reaction to occur
How do ATP and gibbs free energy relate and give an example?
- ATP can drive unfavourable reactions
- glutamic acid + ammonia to form glutamine is an endergonic reaction.
- ATP phosphorylates glutamic acid making the aa less stable
- ammonia displaces the phosphate group forming glutamine
- this reaction is now exergonic
Describe the general energy flow through life
- photosynthesis
- organic molecules + oxygen feeds into mitochondria
- mitochondria generates ATP which powers cellular work
- carbon dioxide and water released - feeds back into photosynthesis.
How does digestion supply regeneration of ATP
it provides macronutrient fuel sources that supply substrates to regenerate ATP (eg. Deaminated amino acids, glucose and free fatty acids)
What are the three stages of catabolism that are used to generate ATP?
- hydrolysis of complex molecules to their building blocks
- conversion of building blocks to Acetyl CoA
- Oxidation of acetyl CoA occurs by oxidative phosphorylation
What are the two laws of thermodynamics?
- energy cannot be created or destroyed, only converted
- The universe is becoming increasingly disordered
What is the formula for the first law of thermodynamics?
ΔH= q+ w (change in enthalpy is heat + work)
What is the significance of a -ΔG
the more negative, the more work that can be done. BUT it does not predict the rate at which reaction will occur!!
Why is oxidation important in metabolic pathways?
Oxidation reactions extract energy from bonds because leaving hydrogens take electrons (used in metabolic pathways)
What enzymes do redox reactions use?
de-hydrogen-ases
How many net ATP does glycolysis produce
two
What are the three stages of cellular respiration?
glycolysis, citric acid cycle, oxidative phosphorylation
what is KM?
Km value is equal to the substrate concentration at which half of the enzyme active sites are saturated with the substrate.
What is the relationship between KM and affinity?
A high KM = low affinity (it takes more substrate to get to Vmax)
At what stage is glucose trapped in the cell?
When glucose is converted to glucose6-phosphate. The addition of the phosphate makes glucose highly polar and polar molecules cannot cross the cell membrane, it is also no longer recognised by the GLUT transporters.
What is the commitment step in glycolysis?
- When fructose-6-phosphate is converted to fructose-1-6-bisphosphate. Fructose-1,6-bisphosphate can only undergo the reaction of glycolysis. (i.e. ready for catabolism)
- PFK enzyme
(The components of the pathway up to this point can have other metabolic directions.)
In what stages of glycolysis is ATP invested?
- Glucose - glucose.6-phosphate
- Glucose-6-phosphate Fructose-1,6-bisphosphate
At what step does a redox reaction occur is glycolysis?
Glyceraldehyde-3-phosphate to 1,3-bisphosphiglycerate.
The cofactor NADH is used and a P is added
What enzyme produces NADH + H+ in glycolysis?
GAPDH - Glyceraldehyde-3-phosphoate dehydrogenase
In whats steps in glycolysis is ATP generated?
- 1,3-bisphosphoglycerate to 3-phosphoglycerate
- Phosphoenolpyruvate to pyruvate
What are the products of glycolysis ?
2 ATP net and 2 NADH
What 3 enzymes are highly regulated in glycolysis?
Hexokinase/glucokinase
Phosphofructokinase
Pyruvate Kinase
How is PFK regulated?
- high ATP (why make more and waste glucose)
- AMP activates PFK (low ATP - make more)
- Citrate inhibits PFK
- Acidification inhibits PFK
What molecule is used in anaerobic glycolysis ? What are the drawbacks and benefits of anaerobic metabolism?
NAD - produces lactate
enzyme - lactate dehydrogenase (LDH)
15x less ATP, but 100x faster
What is the cori cycle?
the metabolic pathway in which lactate produced by anaerobic glycolysis in the muscles moves to the liver and is converted to glucose, which then returns to the muscles and is metabolized back to lactate.