Week 2A: Signal transduction pathways, gluconeogenesis, oxidative phosphorylation 1+2 Flashcards

HC07-10

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1
Q

Signal transduction principles

A

-Primary signals like hormones which bind receptor
-Second messengers: signal transduction intracellular
-Activation of effectors like enzymes
-Termination of the signal

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2
Q

Receptor for epinephrine

A

beta-adrenergic receptor

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3
Q

Reaction EGF to EGF receptor

A

Expression of growth promoting genes > wound healing

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4
Q

Between which steps in signal transduction is amplification performedn

A

Between reception and transduction

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5
Q

Chemical signaling types

A

-Autocrine
-Across gap junctions
-Paracrine
-Endocrine (through blood)

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6
Q

Which cells respond directly to increased glucose levels?

A

Pancreatic islet cells

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7
Q

Adrenaline/ epinephrine response

A

Epinephrine + beta-adrenergic receptor (7TM) > fight or flight response: energy store mobilization

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8
Q

Release insulin effect on glucagon

A

Beta cells contain ready to go granules of insulin before the signal (secretion upon glucose influx)
> insulin binds to pancreatic alpha cells to inhibit glucagon secretion

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9
Q

Beta cell insulin secretion pathway

A
  • Carbohydrate rich meal > rise blood glucose > release insulin beta cells
    1. Glucose uptake by GLUT2
    2. Glycolysis (glucokinase for phosphorylation glucose), TCA cycle and oxidative phosphorylation > increasing ATP and ATP/ADP ratio
    3. Block ATP sensitive K+ (potassium, more inside cell) channel
    a. More positives stay inside > depolarisation > -30 mV from -80 mV.
    b. Na+ influx coupled to glucose uptake.
    4. Membrane depolarization
    5. Open Ca2+ channel (reaction on the depolarisation) > influx
    a. A second messenger > induces transport of the insulin vesicles to the plasma membrane and excretion (fusion with membrane).
    b. Cleavage to monomer form on insulin which is active.
    6. Insulin release
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10
Q

The liver cannot sense increased glucose levels in blood, while pancreatic beta cells do. How is glycogen storage induced in hepatocytes?

A

Insulin receptors

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11
Q

When stress, secretion of …

A

adrenaline by the adrenal gland

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12
Q

Most primary messenger cannot pass the PM, so binding

A

To cell surface receptor

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13
Q

Types of plasma-membrane receptors

A

-G-protein coupled receptor (GPCR) / 7TM receptor
> glucagon and epinephrine receptor
-Protein tyrosine kinase (PTK)
> insulin receptor

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14
Q

Name GPCRs and their general pathway

A

-Receptor activation by binding ligand (conformational change)
-Activation of the bound G-protein (GDP exchanged for GTP)
-Protein protein interactions for activation of transducing proteins and targets
> glucagon receptor, beta adrenergic receptors, chemokine receptors, taste and smell etc

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15
Q

K+-Na+-ATPase (pump)

A

Costs 1 ATP
2 sodium influx for 3 potassium efflux
> retain negative charge inside cytosol for voltage of -90mV over PM

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16
Q

Name a drug which can block the potassium channel to generate Ca2+ influx by depolarization and induce insulin release

A

Sulfonylurea

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17
Q

Pathway glucagon receptor and beta-adrenergic receptor

A

-Binding ligand
-Activation receptor
-Exchange GDP for GTP in G-alpha subunit of trimeric G protein
-Ga dissociates from G-delta,gamma and both are active (new G protein can bind active receptor: amplification)
-Gas activates adenylate cyclase by binding
-Adenylate cyclase catalyzes ATP to cAMP
-Second messenger cAMP activates proteins like Protein Kinase A (PKA) by binding and releasing regulatory subunits.

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18
Q

Structure PKA

A

Tetrameric when inactive (C2R2, catalytic/regulatory)
> cAMP binds the R-subunits and conformational change releases them and activates PKA

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19
Q

Amplification in glucagon and adrenaline pathways

A

-Activated receptor can bind and activate multiple trimeric G-proteins
-Activated G-protein can bind and activate multiple targets like adenylate cyclases
-Adenylate cyclase converts multiple ATP to cAMP.

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20
Q

Which receptor and pathway for the hormones angiotensin II and noradrenaline

A

Alpha-adrenergic receptor
> GPCR activated and G-protein activated (exchange) through Gaq
- Gaq activates Phospholipase C (PLC)
-PLC cleaves PIP2 to IP3 (free) and DAG (membrane bound)
-IP3 binds and opens IP3-sensitive Ca2+ channels on the ER membrane
-Ca2+ influx
-Ca2+ facilitates binding of DAG as activator to Protein kinase C (PKC)
-Activation PKC by releasing regulatory subunits

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21
Q

Ca2+, IP3 and DAG are…

A

second messengers

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22
Q

Cytosolic Ca2+ as second messenger

A

-Interaction with negatively charged oxygen atoms in bining proteins
-Able to cross link protein domains > conformational change (calmodulin, CaM)
- Subsequent binding and activation of other enzymes: CaM kinase bound and activation.

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23
Q

Rise in cytosolic Ca2+ essential for:

A

Glycogen metabolism (liver and muscle) and exocytosis (secretory cells)

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24
Q

Receptor tyrosine kinase function

A

-Binding ligand
-Dimerization intracellular domains upon binding
-Conformational change: kinase domains come nearby > trans-autophosphorylation of tyrosine residues by the tyrosine kinases
-Tyrosine kinases become fully active by this phosphorylation
-phosphorylate substrates, recruitment adaptors
> activatin of the target (PKB)

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25
Q

Which amino acids can be phosphorylated?

A

Serine, Threonine, Tyrosine

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26
Q

Insulin pathway

A
  1. Insulin induces conformational change in structure
  2. Trans-auto-phosphorylation of tyrosines > docking sites for insulin receptor substrates (IRS)
  3. Docking of PI3-K (kinase) to IRS-1
  4. PIP2 > PIP3
  5. Translocation of PDK1 to PM (PIP3-dependent protein kinase, serine/threonine kinase)
  6. Phosphorylation and activation of PKB (Akt)
  7. Akt targets are (in)activated by PKB/Akt
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27
Q

Muscle and adipose response to insulin

A

GLUT4 surface expression, insulin-dependent glucose transport
> GLUT4 vesicles with GLUT4 in the cell, exocytosis when activated by insulin.
> fasted state, no insulin, endocytosis
> PKB and PKC promote translocation of GLUT4 vesicles to PM

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28
Q

Slow vs fast response to extracellular signal

A

Fast: altered protein function, slow: altered gene expression

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29
Q

Termination of signals in GPCRs

A

-Dissociation ligand-receptor
-Internalization receptor-ligand complex by endocytosis
-Phosphorylation receptor-ligand complex by GRK2 > binding beta-arrestin to block signal
(remember, phosphorylations cost ATP)
-GTPase activity by G protein: hydrolysis GTP to GDP, inactive G-protein and inactivation adenylate cyclase
-cAMP degraded by cAMP-phosphodiesterase (cAMP-PDE) to AMP

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30
Q

Name a well known PDE inhibitor

A

Sildenafil (viagra), inhibits PDE 5 which converts cGMP to GMP

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31
Q

Epidermal growth factor (EGF) signaling

A

-EGF receptor binds EGF
-Dimerization and trans-autophosphorylation
-Binding adaptor Grb2 which binds adaptor Sos
-Sos binds Ras in GDP form and induces exchange for GTP.
> Ras signals for cell division and growth
> Ras is a small GTP binding protein

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32
Q

Response in signalling after activation of the

A

effector(s)

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33
Q

HC08: How long do glucose stores last?

A

One day

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34
Q

Glycogen levels during day

A

Fluctuate: peaks after dinner and after breakfast

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35
Q

Healthy blood glucose

A

5 mM

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36
Q

Glucose homeostasis in times after fasting

A

-Short term: exogenous glucose
-Up to 12 hrs: glycogenolysis
-long term: gluconeogenesis

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37
Q

Why is blood glucose maintenance so important

A

Vital functions like the brain and erythrocytes depend on it

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38
Q

In which organs gluconeogenesis?

A

Liver and kidney

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39
Q

Gluconeogenesis is largely the reversal of glycolysis, except which steps?

A

The regulation steps

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40
Q

Regulation steps of gluconeogenesis

A

-Pyruvate carboxylase
-Phosphofructokinase-2 complex
-Glucose-6-phasphatase

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41
Q

In which tissues is glucose-6-phosphatase expressed?

A

Liver and kidney

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42
Q

The direction for enzymes that catalyze reaction both ways depends on ..

A

the concentration of the substrates

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43
Q

What energy is needed for gluconeogenesis

A

NADH and ATP (6 ATP)

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44
Q

Why are some steps irreversible

A

Huge change in Gibbs free energy

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45
Q

For which conversion from the reverse route of glycolysis in gluconeogenesis is a sideroute needed

A

Pyruvate to phosphoenolpyruvate (PEP)
(animal PK cannot phosphorylate pyruvate)
> detour through mitochondrion

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46
Q

Conversion pyruvate to PEP in gluconeogenesis

A

Pyruvate > Oxaloacetate > PEP
From pyruvate (C3) to oxaloacetate (C4)
> pyruvate carboxylase

47
Q

Substrates pyruvate carboxylase

A

Pyruvate, CO2 in the form of HCO3- (bicarbonate, hydrogen carbonate), ATP

48
Q

Where is pyruvate carboxylate located

A

Mitochondrial matrix

49
Q

How is oxaloacetate transported from mitochondial matrix to cytosol

A

Malate shuttle
> oxaloacetate to malate using 1 NADH, transport to cytosol, make oxaloacetate and yield the NADH back

50
Q

Conversion oxaloacetate to PEP/phosphoenolpyruvate in cytosol

A

Oxaloacetate + GTP > PEP + GDP + CO2 (by PEP carboxykinase in cytosol)

51
Q

Regulation pyruvate carboxylase

A

-Activation by acetyl-CoA
-Inhibition by ADP

52
Q

Regulation PEP carboxykinase

A

Inhibition by ADP

53
Q

Reciprocal regulation of glycolysis and gluconeogenesis

A

By Fructose-2,6-bisphosphate
> activation PFK-1
> inhibition F-1,6-BPase (gluconeogenesis: F-1,6-P > F-6-P)

54
Q

Regulation Fructose-1,6-bisphosphatase

A

Inhibition by F-2,6-BP and AMP
Activation by citrate

55
Q

How is PFK-2 inactivated and FBPase2 activated simultaneously?

A

PKA phosphorylates the PFK-2 domain of the bifunctional enzyme which activates FBPase2
> Insulin promotes phosphoprotein phosphatase and therefore PFK-2 by dephosphorylating it.
> F-6-P promotes the phosphatase as well
> Glucagon (or adrenaline) stimulates PKA and therefore FBPase2
> PFK-2 promotes formation F-2,6-BP which promotes glycolysis while inhibiting gluconeogenesis.
> FBPase2 prevents formation of F-2,6-BP (phosphatase)

56
Q

Function Glucose-6-phosphatase

A

Convert G6P to glucose to export it to blood, increase blood glucose levels
> only in liver and kidney

57
Q

Where G6Pase activity?

A

ER luminal side of ER membrane
> T1 imports G6P
> G6Pase converts to glucose and Pi
> Pi export out of ER using T2
> glucose exports with T3

58
Q

Substrate and precursors for gluconeogenesis

A

Substrate: pyruvate (2)
Precursors: lactate, some amino acids, glycerol
> lactate (oxidation, yield NADH) and alanine and other C3 amino acids converted to pyruvate
> C4 and C5 amino acids anaplerosis and through conversion to oxaloacetate entering
> Glycerol converted (C3) to Glycerol-3-P which can be oxidized (yield NADH) to triose-P

59
Q

Cori cycle

A

Lactate from anaerobic glycolysis transported to liver via blood and gluconeogenesis and glucose back to muscle for anaerobic glycolysis

60
Q

Glycerol can be used for gluconeogensis. Can FAs be as well?

A

No (often not)

61
Q

Prosthetic group of pyruvate carboxylase

A

Biotin (vitamin B7)
> biotin is the carrier of activated CO2 (HCO3-)

62
Q

Which molecule is essential for pyruvate carboxylase to work

A

Acetyl-CoA > allosteric activator

63
Q

Fatty acids are required for gluconeogenesis but cannot be converted. explain

A

Generate energy (ATP, GTP) for gluconeogenesis and to activate pyruvate carboxylase through acetyl-CoA

64
Q

Acetyl-CoA (breakdown product FA oxidation) cannot be used to make glucose, explain

A

Acetyl-CoA (C2) cannot be converted to pyruvate (PDH step is irreversible)
> goes into TCA cycle, broken down into CO2

65
Q

Futile cycle glycolysis and gluconeogenesis costs

A

Waste of energy: is avoided through reciprocal regulation
> 2 ATP + 2 GTP + 4 H2O > 2 ADP + 2 GDP + 4 Pi
> gluconeogenesis costs 2 NADH as well, but same yield in glycolysi

66
Q

Gluconeogenesis from 2 pyruvate to 1 glucose costs

A

6 NTPs > 4 ATP and 2 GTP

67
Q

distribution gluconeogenesis

A

90% in liver and 10% in kidney

68
Q

HC09: energy release from ATP hydrolyses reactions

A

-ATP + H2O > ADP + Pi: dG: -30.5 kJ/mole
-ADP + H2O > AMP + Pi. dG: -30.5 kJ/mole
-ATP + H2O > AMP + PPi: dG: -40.6 kJ/mole
-PPi + H2O > 2 Pi: dG -31.8 kJ/mole
-AMP + H2O > A + Pi (-12.6 kJ/mole)

69
Q

ATP has how many energy rich … bonds

A

2 phosphoanhydride bonds
> unstable, negative charges

70
Q

Energy rich bond in acetyl-CoA

A

Thioester bond

71
Q

Metabolic roads to acetyl-CoA predominantly in the …

A

mitochondria

72
Q

The mitochondrial inner membrane folds into …

A

Cristae

73
Q

Dynamism of mitochondria

A

Fusion and fission, also mitophagy (then recycling) by autophagy or apoptosis induction by release cytochrome c

74
Q

Which chain of enzymes is found in inner mitochondrial membrane?

A

Electron transport chain (respiratory chain)

75
Q

Proton motive force

A

delta p = chemical gradient (delta pH based on concentrations) + charge gradient (d w)
> electrochemical gradient

76
Q

Highly regulated transport over mitochondrial membranes?

A

Outer membrane: no special transport needed, porous, free entry
Inner membrane: selective, transporters needed.

77
Q

ATP is produced in a process called …

A

intermediate metabolism
> glucose is oxidized in controlled way, to release its energy in the form of ATP
> glycolysis, PDH oxidative decarboxylation, mitochondrion, oxidative phosphorylation

78
Q

Where PDH oxidative decarboxylation?

A

In mitochondrial matrix

79
Q

TCA cycle generates …

A

3 NADH + H+
1 FADH2
1 GTP

80
Q

NADH carries … high energy electrons

A

2 (hydride ion)
dE0= 61.2 kJ/mole

81
Q

Electron transport chain + ATP synthase numbered

A

Complex I: NADH dehydrogenase
Complex II: succinate dehydrogenase (no protons pumped for proton gradient)
Complex III: cytochrome b-c1
Complex IV: cytochrome oxidase
Complex V: ATP synthase

82
Q

Complex II is an … of the TCA cycle

A

Enzyme > succinate dehydrogenase converts succinate into fumarate, reducing its prosthetic (tightly bound) group FADH2.
> contains Fe-S cluster (iron sulfur) to transport electrons.
> donates electrons to Coenzyme Q to deliver it to complex III
> skips complex I: less ATP yield because less protons pumped through FADH2

83
Q

Complex I gives energy rich electrons after pumping … protons to the intermembrane space to ..

A

4 protons pumped, electrons give to Coenzyme Q

84
Q

How many protons do complex III and IV pump

A

2 (III) and 4 (IV) respectively

85
Q

What is the electron acceptor at complex III?

A

Cytochrome c

86
Q

Is FADH2 generated in tca a regulator of many enzymes except complex II?

A

No, FADH2 is stuck in the enzyme (it is a protein, prosthetic group)

87
Q

What happens to leftover low energy electron at complex IV

A

Molecular oxygen will happily receive them as acceptor > reduction to water.

88
Q

What happens to the generated proton gradient

A

Proton motive force used to generate ATP through transport through ATP synthase back to matrix
> proton gradient has a maximim like a battery: electron transport chain is stopped because the extra protons cannot be used anymore: and TCA cycle stops because too much NADH and no NAD+

89
Q

Coenzyme Q and cytochrome c are … of the electron transport chain

A

Electron shuttles

90
Q

Which of the electron transport chain molecules contain iron sulfur clusters?

A

Complex I, II, III

91
Q

What is CoQ as molecule

A

A lipid
> 10 isoprene units and quinone head group

92
Q

Reduction CoQ

A

CoQ ubiquinone Q (oxidized form)
> one electron transfer + H+
- Semiquinone, free radical, Q*-
> one electron transfer + H+
-Ubiquinol CoQH2 (QH2, reduced form)

93
Q

NADH has allosteric influence, why not FADH2 as regulator of other enzymes

A

It is tightly bound by enzymes as prosthetic group so cannot move freely (flavoprotein)

94
Q

Which enzyme in cellular respiration besides succinate dehydrogenase has FAD as prosthetic group?

A

E3 of the PDH complex

95
Q

HC10: FADH2 has … energy conserved than NADH

A

less

96
Q

FADH2 is a flavoprotein, is it soluble?

A

No

97
Q

How many NADH + H+ needed to reduce one molecular oxygen O2?

A

2 NADH + 2 H+
> four protons needed and Electrons needed

98
Q

Reaction in cytochrome c oxidase (Complex IV)

A

Four substrate protons and four translocated protons:
4 cyt c-red + 8 H+ (matrix) + O2 > 4 cyt c-ox + 2 H2O + 4 H+ (intermembrane space)

99
Q

Reducing oxygen at complex IV is an .. reaction (endo/exo)

A

Exergenic reaction

100
Q

The catalytic mechsnism of cytochrome c oxidase represents a

A

cycle
> the electron transfers is coupled to proton translocation across the inner mitochondrial membrane.

101
Q

What happens at high ATP?

A

ATP synthase stops
> proton gradient builds up to maximum and oxidative phosphorylation comes to complete stop
> No respiratory control, no TCA cycle (coupled systems), too much NADH and no NAD+ to keep TCA cycle running

102
Q

ATP synthase structure

A

-c subunits of the F0 (integrated in inner membrane) > each bind one proton and rotate
-Alpha and beta subunits of the F1 headpiece (hangs into matrix) remain static
-Central gamma subunit of F1 rotates, changing the conformation of the beta subunits

103
Q

Conformations of beta subunits ATP synthase

A

-From loose: binding ADP and Pi
-Via tense (after rotation): squash ADP and Pi together to make ATP
-To open: releasing ATP
> three beta subunits in headpiece which changes constantly in this order (loose, tense, open)
> ATP release with each conformational change

104
Q

Price of ATP generation when respiratory chain completely reduced

A

Respiratory chain completely reduced and oxygen present > ROS
-electron stolen from the process by oxygen
-Three ROS
>Superoxide (O2-), hydrogen peroxide (H2O2), Hydroxyl radical (OH) (+ hydroxide OH-, no ROS)
> through one electron reduction reactions from O2 to 2 H2O as intermediates

105
Q

ROS come mostly from complexes …

A

I and III
NADH dehydrogenase and cytochome b-c1 complex

106
Q

When superoxide production by complex I

A

Reperfusion injury
> reverse electron transport
> equilibrium reactions: reverse possible
> chance of making superoxygen reactants.

107
Q

Supercomplex increase … and reduce …

A

increase efficiently and reduce ROS formation
> cristae reconfiguration> bring complexes together to respiratory supercomplex

108
Q

Which enzyme nutralizes superoxide (O2*-)

A

Superoxide dismutase (SOD)
> O2- + O2- + 2H+ > H2O2 (hydrogen peroxide)
- electron transfer attracts protons to neutralize
-GPX converts H2O2 to H2O

109
Q

Can the hydroxyl radical be neutralized

A

No, you are screwed.

110
Q

ROS signaling

A

ROS because of exercise or hypoxia etc activates TFs, and leads to gene transcription of antioxidant enzymes, phase I and II detoxifying enzymes, UCP1
> increases health and lifespan

111
Q

Mitohormesis

A

reduced amount of mitochondrial stress is beneficial for health because of ROS signaling, but too much is dangerous and deadly

112
Q

Uncoupling

A

If energy is not caught as ATP, it is lost as heat

113
Q

Chemical uncoupling agent

A

Dinitophenol (DNP), used to ‘burn fat’
> high H+ concentrations causes outside protons to bind to DNP molecules
> transfer DNP across inner mitohondrial membrane
> low H+ in matrix causes dissociation of DNP molecules
> generation heat
> energy and thus fat when fasting used for energy, but no ATP generation thus the respiratory chain and TCA cycle and burning of fat continues
> patients may die to hyperthermia and too low ATP when overdose

114
Q

Uncoupling in brown fat

A

Uncoupling protein (UCP-1, thermogenin) in babies and adults
> proton motive force used for movement into matrix without coupling to ATP synthase but rather through UCP-1 transporter which releases the energy as heat
> protons shake while brought back to matrix which gives heat