Biochemistry BS31004: Bioenergetics Overview

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Questions and Answers

Fe-S clusters within proteins can carry ______ electron at a time.

1

Haems are capable of carrying ______ electron at a time.

1

Quinones can carry ______ electrons at a time.

2

Cofactors in respiration have their own ______ potentials.

<p>redox</p> Signup and view all the answers

The structure known as 'Complex I' is part of the ______ chain in mitochondria.

<p>electron transport</p> Signup and view all the answers

NADH is a key electron donor in the ______ process.

<p>respiration</p> Signup and view all the answers

In the mitochondrial matrix, fatty acids are transferred through ______.

<p>ETF</p> Signup and view all the answers

Oxygen is utilized as the final electron ______ in the electron transport chain.

<p>acceptor</p> Signup and view all the answers

The ______ is the site of ATP synthesis within the mitochondrion.

<p>ATP synthase</p> Signup and view all the answers

The ______ transport chain is responsible for transferring electrons during mitochondrial respiration.

<p>electron</p> Signup and view all the answers

Redox potentials measure the tendency of a substance to gain or lose ______.

<p>electrons</p> Signup and view all the answers

Mitochondrial respiration occurs in the ______ of the cell.

<p>mitochondria</p> Signup and view all the answers

______ are molecules that assist enzymes in biochemical reactions during respiration.

<p>Cofactors</p> Signup and view all the answers

The proton motive force is defined as Δp (mV) = Δψ – 59(or 61)Δp______.

<p>pH</p> Signup and view all the answers

In electron transport, the strongest reductants are found at the ______ of the redox potential scale.

<p>top</p> Signup and view all the answers

The main function of the mitochondrion is to produce ______ for the cell.

<p>ATP</p> Signup and view all the answers

A common electron donor in respiration is ______/NADH.

<p>NAD+</p> Signup and view all the answers

In the process of respiration, approximately ______ ATPs are produced per O2 molecule burned.

<p>5-6</p> Signup and view all the answers

The redox couple ½O2/H2O has a standard reduction potential of ______ volts.

<p>0.82</p> Signup and view all the answers

Flavins can carry ______ electrons at a time.

<p>2</p> Signup and view all the answers

Each proton releases roughly ______ kJ mol-1 of free energy.

<p>22</p> Signup and view all the answers

In the context of respiration, electron transfer occurs within ______ via cofactors.

<p>proteins</p> Signup and view all the answers

For every O2 consumed, about ______ protons are pumped across the mitochondrial membrane.

<p>20</p> Signup and view all the answers

The reaction NADH + H+ + ½O2 → NAD+ + H2O has a ΔE0' of ______ volts.

<p>1.14</p> Signup and view all the answers

The P:O ratio indicates the number of protons required to make one ______.

<p>ATP</p> Signup and view all the answers

The process of ATP synthesis in mitochondria is linked to the flow of ______ through the inner mitochondrial membrane.

<p>protons</p> Signup and view all the answers

The strongest oxidants are located at the ______ of the redox potential scale.

<p>bottom</p> Signup and view all the answers

In the electron transport chain, SO42-/H2S has a redox potential of ______ volts.

<p>-0.22</p> Signup and view all the answers

Thermodynamically, it takes approximately ______ kJ mol-1 to synthesize ATP from ADP.

<p>50</p> Signup and view all the answers

The Adenine Nucleotide Translocator (ANT) is influenced by Δ______, contributing to ATP transport.

<p>psi</p> Signup and view all the answers

The transfer of electrons in respiration is crucial for ______ synthesis.

<p>ATP</p> Signup and view all the answers

In mitochondrial respiration, the case of extra protons is due to the need to produce ATP for the ______.

<p>cell</p> Signup and view all the answers

______ are essential cofactors in respiration that assist in the electron transport chain.

<p>NADH and FADH2</p> Signup and view all the answers

The mitochondrion creates ATP for the cell, not for its own ______.

<p>needs</p> Signup and view all the answers

The ______ is the site for electron transport in mitochondria.

<p>inner membrane</p> Signup and view all the answers

The proton gradient across the inner membrane creates a ______ that drives ATP synthesis.

<p>chemiosmotic gradient</p> Signup and view all the answers

Electrons are ultimately transferred to the terminal ______ in the electron transport chain.

<p>acceptor</p> Signup and view all the answers

Uncoupling protein 1 (UNC1) in brown fat mitochondria plays a role in ______ thermogenesis.

<p>non-shivering</p> Signup and view all the answers

Dinitrophenol (DNP) is a chemical that acts as a potent ______ of oxidative phosphorylation.

<p>uncoupler</p> Signup and view all the answers

The transfer of electrons in the mitochondrial electron transport chain is coupled with the pumping of ______ ions.

<p>proton</p> Signup and view all the answers

Quinones are ______ that facilitate electron flow in mitochondrial respiration.

<p>electron carriers</p> Signup and view all the answers

In the electron transport chain, the redox potentials of molecules determine their ability to ______ electrons.

<p>accept</p> Signup and view all the answers

The ______ region of the mitochondria is involved in ATP synthesis through the enzyme ATP synthase.

<p>matrix</p> Signup and view all the answers

What is the primary function of the mitochondrion within the cell?

<p>To produce ATP for cellular processes (B)</p> Signup and view all the answers

Which process is directly coupled to ATP synthesis in mitochondria?

<p>The electron transport chain (D)</p> Signup and view all the answers

What is the primary role of the TCA Cycle within cellular metabolism?

<p>To generate reducing equivalents for the electron transport chain (C)</p> Signup and view all the answers

Which component of the mitochondrion is primarily responsible for ATP synthesis?

<p>The inner mitochondrial membrane (C)</p> Signup and view all the answers

What is the significance of the proton motive force in mitochondria?

<p>It generates a gradient that powers ATP synthesis (A)</p> Signup and view all the answers

What is the role of mitofusin proteins in mitochondrial biogenesis?

<p>They facilitate mitochondrial membrane fusion. (C)</p> Signup and view all the answers

Which of the following best describes the mitochondrial proton electrochemical gradient?

<p>It is vital for ATP synthesis as it drives protons back into the matrix. (D)</p> Signup and view all the answers

What is the approximate size of the mitochondrial genome?

<p>16.5 kbp (A)</p> Signup and view all the answers

What triggers Drp1 to form a ring structure that constricts during mitochondrial division?

<p>ER fusion stimulation. (D)</p> Signup and view all the answers

How much free energy is generally produced from the proton gradient in the mitochondrion?

<p>Approximately -200 mV (D)</p> Signup and view all the answers

What does the equation ΔG = R × T × ln ([inside]/[outside]) represent in terms of an electrochemical gradient?

<p>The free energy change associated with ion gradients (D)</p> Signup and view all the answers

Which constant is used in the equation for calculating the change in free energy for a proton gradient?

<p>Gas constant 'R' (C)</p> Signup and view all the answers

In a proton gradient, what does a ΔpH of approximately 0.5 indicate?

<p>Significant acidity inside the inner membrane space (B)</p> Signup and view all the answers

What should be carefully considered when working through electrochemical gradient calculations?

<p>The units of measurement involved in calculations (B)</p> Signup and view all the answers

What effect does a positive Δψ have on the inner membrane in terms of proton movement?

<p>It promotes proton influx into the mitochondrial matrix (D)</p> Signup and view all the answers

What is the significance of the electron transfer potential within the electron transport chain?

<p>It indicates which substances can act as electron donors or acceptors. (A), It establishes the sequence of electron carriers based on their ability to donate electrons. (D)</p> Signup and view all the answers

Flavins, as electron carriers, have a specific feature. What is it?

<p>They can carry two electrons at a time. (C)</p> Signup and view all the answers

In the context of respiration, what is primarily indicated by the standard reduction potentials (E0')?

<p>The tendency of substances to gain or lose electrons. (A)</p> Signup and view all the answers

What does a higher standard reduction potential (E0') indicate for an electron acceptor?

<p>It can act as a stronger oxidant. (B)</p> Signup and view all the answers

Which redox couple is recognized as the strongest reductant based on its standard reduction potential?

<p>2H+/H2 (B)</p> Signup and view all the answers

Flashcards

Fe-S clusters

Molecules within proteins that can carry one electron at a time.

Haem/Heme

A cofactor that can carry one electron at a time, crucial in electron transfer.

Quinones

Cofactors that can carry two electrons at a time.

Electron Transfer

The movement of electrons between molecules within proteins and across the lipid bilayer.

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Ubiquinone

A type of quinone that plays a role in electron transfer.

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Mitochondrion

A cellular organelle that plays a critical role in respiration and energy production.

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Electron Transport Chain

A series of protein complexes and cofactors that transfer electrons to oxygen.

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Redox Potential

The tendency of a cofactor to gain or lose electrons.

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Proton motive force

The electrochemical gradient generated by the pumping of protons across a membrane.

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Δp (mV)

Measure of the proton motive force in millivolts.

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Δψ

Membrane potential component of proton motive force.

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ΔpH

pH difference component of the proton motive force.

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Redox potential (E0')

Measure of a molecule's tendency to accept or donate electrons.

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Electron donor

A molecule that releases electrons in a redox reaction.

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Electron acceptor

A molecule that gains electrons in a redox reaction.

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Flavins

Organic cofactors that transport electrons in metabolic pathways.

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Respiration

Metabolic process where energy is released from glucose or other molecules.

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Mitochondrial ATP Production

The mitochondrion produces ATP for the cell's energy needs, not for its own use.

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Proton Gradient

The difference in proton concentration between the intermembrane space (IMS) and the mitochondrial matrix. This gradient is a form of stored energy.

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pH Gradient

The variation in pH between the IMS (acidic) and the matrix (alkaline). It contributes to the proton gradient.

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Electrochemical Gradient

Combined effect of the proton gradient (ΔpH) and the electrical potential difference (Δψ) across the mitochondrial membrane.

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Phosphate Carrier

A protein that transports phosphate ions (H2PO4-) across the mitochondrial membrane.

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Uncoupling

A process where the proton gradient is dissipated without ATP production. This releases energy as heat.

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Dinitrophenol (DNP)

A chemical that uncouples oxidative phosphorylation, leading to heat production.

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Brown Fat

A type of fat tissue containing specialized mitochondria that uncouple oxidative phosphorylation, producing heat.

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Uncoupling Protein 1 (UCP1)

A protein found in brown fat mitochondria that facilitates proton leak, leading to thermogenesis.

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Chemiosmotic Gradient

The energy stored in the proton gradient across the mitochondrial membrane. It drives ATP synthesis.

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Mitochondrial function

Mitochondria are responsible for cellular respiration, producing ATP (energy currency) through the breakdown of carbohydrates, fats, and proteins.

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Chemiosmotic theory

This theory explains how ATP synthesis is coupled to electron transport in mitochondria. It involves the generation of a proton gradient across the inner mitochondrial membrane, which drives ATP production.

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Respiratory Electron Transport Chain

A series of protein complexes embedded in the inner mitochondrial membrane that transfer electrons from electron donors to oxygen, creating the proton gradient essential for ATP synthesis.

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Oxidative phosphorylation

The process by which ATP is produced by the transfer of electrons from NADH and FADH2 to oxygen, using the energy released to pump protons across the inner mitochondrial membrane.

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Δp (Proton Motive Force)

The electrochemical potential difference across the inner mitochondrial membrane, created by the proton gradient. This gradient is used by ATP synthase to produce ATP.

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Proton Circuit

The process of moving protons across the inner mitochondrial membrane to generate a proton gradient, which is used to produce ATP.

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P:O Ratio

The ratio of the number of ATP molecules produced to the number of oxygen atoms consumed in respiration.

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How many ATP are produced per oxygen molecule?

Approximately 5-6 ATP molecules are produced per oxygen molecule consumed during respiration.

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How many protons are pumped per oxygen molecule?

Approximately 20 protons are pumped across the inner mitochondrial membrane per oxygen molecule consumed in respiration.

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How many protons are needed per ATP?

Approximately 3-4 protons are needed to produce one ATP molecule.

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Free energy of ATP hydrolysis

The amount of energy released when one mole of ATP is broken down into ADP and inorganic phosphate.

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Free energy released per proton

The amount of energy released when one proton moves across the inner mitochondrial membrane.

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How many protons per ATP (thermodynamically)?

Approximately 2.2 protons are needed to produce one ATP molecule based on thermodynamic considerations.

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Why are more protons needed than thermodynamically calculated?

The mitochondrion produces ATP for the cell, not for itself. The Adenine Nucleotide Exchanger requires a proton motive force (Δψ) for the exchange of ADP and ATP, which consumes extra protons.

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Adenine Nucleotide Exchanger (ANT)

A protein located in the inner mitochondrial membrane that exchanges ADP from the intermembrane space for ATP from the matrix, consuming protons to drive the exchange but not affecting the pH gradient.

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Mitochondrial DNA

The circular DNA molecule found within mitochondria, encoding essential proteins for mitochondrial function.

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Mitochondrial Fusion & Fission

Processes that regulate the size and number of mitochondria. Fusion combines mitochondria, while fission splits them.

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Mitophagy

The process of selective degradation of damaged mitochondria by autophagy.

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Proton Motive Force (Δp)

The combined effect of the proton gradient (ΔpH) and the electrical potential difference (Δψ) across the mitochondrial membrane.

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Mitochondrial Structure

Mitochondria are cellular organelles with a unique structure that supports their role in energy production. They have two membranes: the outer membrane and the inner membrane. The inner membrane is folded into cristae, increasing its surface area and providing more space for protein complexes involved in respiration.

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ATP Synthesis

The process by which ATP is generated using the energy stored in the proton gradient across the inner mitochondrial membrane. The enzyme ATP synthase uses the proton gradient to drive the synthesis of ATP from ADP and inorganic phosphate.

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Electron Transfer in Respiration

The movement of electrons through a series of protein complexes and cofactors embedded in the inner mitochondrial membrane, releasing energy used to pump protons across the membrane.

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How does electron transfer power proton pumping?

As electrons move through the electron transport chain, energy is released. This energy powers proton pumps, which actively transport protons from the mitochondrial matrix to the intermembrane space, creating the proton gradient that drives ATP synthesis.

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Study Notes

Biochemistry and Cell Biology - Bioenergetics

  • Course code: BS31004
  • Lecturer: Marios Stavridis
  • University: University of Dundee

Intended Learning Outcomes

  • Students should understand the structure and function of mitochondria.
  • Students should appreciate the central principles of chemiosmotic theory.
  • Students should have detailed knowledge of the respiratory electron transport chain's structure, function, and molecular mechanism.
  • Students should be familiar with the molecular basis of ATP synthesis and its coupling with the respiratory electron transport chain function.

Mitochondrion Structure

  • Outer membrane: surrounds the mitochondrion.

  • Inner membrane: folded into cristae, increasing surface area.

  • Intermembrane space: area between the inner and outer membranes.

  • Matrix: inner compartment of the mitochondrion.

  • Main functions within the matrix: ATP synthesis, the TCA Cycle, β-oxidation, and the Urea Cycle.

  • Mitochondrial ribosomes (55S): present in the matrix

  • Mitochondrial genome (16.5 kbp, 22 tRNAs, 2 rRNAs, 13 ORFs): present in the matrix

Biogenesis of Mitochondria

  • Fusion: process of mitochondria joining together (mfn1 and 2, OPA1 proteins).
  • Fission: process of mitochondria splitting apart (Drp1 protein).
  • Mutations in mfn2 and OPA1 can lead to Charcot-Marie-Tooth neuropathy.

Degradation of Mitochondria - Mitophagy

  • Degradation can be triggered by starvation events.
  • Mitophagy is a process where damaged mitochondria are broken down.

Energy Transduction

  • Proton electrochemical gradient: high concentration of protons in the intermembrane space relative to the matrix.
  • This creates a difference in voltage and pH between the matrix and the intermembrane space.
  • Δψ (membrane potential): voltage difference across the inner mitochondrial membrane, approximately -200 mV.
  • ΔpH (pH gradient): the difference in pH between the matrix and IMS, approximately ~ 0.5.
  • Free energy (G) in the gradient can be calculated using the formula G = n F Δ.

Respiration

  • Electron transfer within proteins - cofactors: Flavins, Fe-S clusters, and haem proteins facilitate electron transfer amongst proteins.
  • Flavins can carry two electrons at a time.
  • Fe-S clusters can carry one electron at a time.
  • Haem proteins can carry one electron at a time.
  • Electron carriers: quinones (ubiquinone, menaquinone, demethylmenaquinone) facilitating electron transfer. Quinones can carry two electrons at a time.
  • Redox potentials of relevant cofactors and compounds are important for understanding electron flow in the respiratory chain.
  • Electron flow powers proton pumps and creates the proton electrochemical gradient. This gradient is crucial for ATP synthesis.
  • Key compounds such as glycerol-3-P, fatty acids, succinate, and others can be oxidized and donate electrons in the respiratory process.

Mitochondrion ATP Synthesis

  • ATP synthesis occurs through Complex V.

  • The proton gradient powers ATP synthase (Complex V).

  • Specific inhibitors such as rotenone, malonate, antimycin, cyanide, and oligomycin can inhibit the electron transport chain and affect ATP synthesis.

  • P/O ratio: amount of ATP produced per O2 consumed. Generally, ~3-4 protons are required to make each ATP.

Uncoupling

  • Uncoupling proteins (UCP) can dissipate the proton electrochemical gradient as heat.
  • Dinitrophenol (DNP) is another uncoupler that can also dissipate the proton electrochemical gradient thereby reducing ATP efficiency.
  • Brown fat mitochondria: particularly active in uncoupling to regulate heat generation.
  • Uncoupling protein 1 (UCP1) plays a central role in brown fat mitochondria for heat production.

Summary

  • Energy production in cells follows thermodynamics rules using complex biochemical pathways.
  • Electron flow powers proton pumps to generate a chemiosmotic gradient.
  • Electron transfer is facilitated by various compounds (quinones, etc.)
  • A key concept is the link between the electrochemical proton gradient and ATP synthesis.

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