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Aerobic respiration

Aerobic respiration. Mitochondrial structure and function Visible under light microscope Universal in aerobic eukaryotes Have own DNA and ribosomes Number and shape vary widely in different cell types Number: more in cells with higher E requirements

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Aerobic respiration

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  1. Aerobic respiration • Mitochondrial structure and function • Visible under light microscope • Universal in aerobic eukaryotes • Have own DNA and ribosomes • Number and shape vary widely in different cell types • Number: more in cells with higher E requirements • Shape: can undergo fission and fusion to yield typical ‘cylinder’ shape or more complex tubular networks

  2. Aerobic respiration • Mitochondrial structure and function • Membranes • Outer: permeable to many things • Porins, large central pore • Inner: highly impermeable • Rich in cardiolipin (also present in bacterial membanes) • Channels for pyruvate, ATP, etc

  3. Aerobic respiration • Mitochondrial structure and function • Membranes • Outer: permeable to many things • Porins, large central pore • Inner: highly impermeable • Rich in cardiolipin (also present in bacterial membanes) • Channels for pyruvate, ATP, etc • Cristae • Complex invaginations of the inner membrane • Functionally distinct • Joined to inner membrane via narrow channels

  4. Aerobic respiration • Mitochondrial structure and function • Intermembrane space • Between inner and outer membranes • Also within the cristae • Acidified ( high [H+] ) by action of the Electron Transport Chain (ETC) • H+ are pumped from matrix into this compartment • ATP synthase lets them back into the matrix

  5. Aerobic respiration • Mitochondrial structure and function • Matrix • Compartment within the inner membrane • Very high protein concentration ~500mg/ml • Contains: • ribosomes and DNA • Enzymes of TCA cycle, enzymes for fatty acid degradation

  6. Glycolysis • 6C glucose --> --> --> 2x3C pyruvate + 2NADH

  7. Glycolysis • 6C glucose --> 3C pyruvate + 2NADH NADH enters the mitochondria by one of two mechanisms: 1. aspartate-malate shuttle NADH --> NADH 2. glycerol phosphate shuttle NADH --> FADH2 • Pyruvate to TCA

  8. The Aspartate – Malate Shuttle

  9. TCA cycle • 3C --> 2C + CO2 + NADH • CoA derived from pantothenic acid • Condensation: 2C + 4C --> 6C • Isomerization

  10. TCA cycle • 3C --> 2C + CO2 + NADH • CoA derived from pantothenic acid • Condensation: 2C + 4C --> 6C • Isomerization • 6C --> 5C + CO2 +NADH • 5C --> 4C + CO2 +NADH • 4C + GTP • 4C + FADH2

  11. TCA cycle • 3C --> 2C + CO2 + NADH • CoA derived from pantothenic acid • Condensation: 2C + 4C (OA) --> 6C • Isomerization • 6C --> 5C + CO2 +NADH • 5C --> 4C + CO2 +NADH • 4C + GTP • 4C + FADH2 • Hydration • 4C (OA) + NADH

  12. TCA cycle 2Pyruvate + 8NAD+ + 2FAD + 2GDP + 2Pi --> 6CO2 + 8NADH + 2FADH2 + 2GTP • Adding in products of glycolysis, 2NADH + 2ATP • Total yield of glycolysis and TCA cycle: 8NADH + 4FADH2 + 4ATP

  13. Fatty acid catabolism • Enzymes localized to mitochondrial matrix • Fatty acids cross inner membrane and become linked to HS-CoA • Each turn of cycle generates FADH2 + NADH2 + Acetyl-CoA

  14. Amino acid catabolism • Enzymes in matrix • AA’s cross inner membrane via specific transporters • Enter TCA at various points

  15. General outline of oxidative phosphorylation

  16. Oxidation-reduction potentials • Reducing agents give up electron share • The lower the affinity for electrons, the stronger the reducing agent • NADH is strong, H2O is weak • Oxidizing agents receive electron share • The higher the affinity for electrons, the stronger the oxidizing agent • O2 is strong, NAD+ is weak • Couples • NAD+ - NADH couple (weak oxidizer, strong reducer) • O2 - H2O couple (strong oxidizer, weak reducer)

  17. Oxidation-reduction potentials • Eo’ measures affinity for electrons • Negative Eo’ indicates a stronger reducing agent • Positive Eo’ indicates a stronger oxidizing agent • In Electron Transport Chain: e- are passed from stronger reducing agents to form weaker reducing agents • Pass from more negative to more positive Eo’ • H2O is the weakest reducing agent (of interest here) • NADH --> H2O G0’ = -53kcal/mol 7ATP(max), ~3ATP(real)

  18. Electron Transport Chain • Electron carriers • Flavoproteins • FAD/FMN (riboflavin) • NADH DH (complex I) • Succinate DH (complex II, TCA cycle)

  19. Electron Transport Chain • Electron carriers • Flavoproteins • FAD/FMN (riboflavin) • NADH DH (complex I) • Succinate DH (complex II, TCA cycle) • Cytochromes • Heme (Fe) groups

  20. Electron Transport Chain • Electron carriers • Flavoproteins • FAD/FMN (riboflavin) • NADH DH (complex I) • Succinate DH (complex II, TCA cycle) • Cytochromes • Heme (Fe) groups • Cu atoms • Cu2+ <--> Cu1+ • Ubiquinone • Free radical intermediate • Lipid soluble • Dissolved within inner mitochondrial membrane • Fe-S centers

  21. Electron Transport Chain • Electron carriers • Flavoproteins • FAD/FMN (riboflavin) • NADH DH (complex I) • Succinate DH (complex II, TCA cycle) • Cytochromes (b, c1, c, a) • Heme (Fe) groups • Cu atoms • Cu2+ <--> Cu1+ • Ubiquinone (Q or UQ) • Free radical intermediate • Lipid soluble • Dissolved within inner mitochondrial membrane • Fe-S centers

  22. Electron Transport Chain • Complex I passes e- from NADH to UQ and pumps 4H+ out of matrix • Complex II passes e- from FADH2 to UQ • UQ shuttles e- to Complex III

  23. Electron Transport Chain • Complex III passes e- to Cytochrome c and pumps 4H+ out of matrix • Cytochrome c passes e- to Complex IV • Complex IV passes e- to O2 forming H2O and pumps 2H+ out 1 pH unit diff

  24. ATP synthesis: The ATP Synthase enzyme • F1 head/sphere (ATPase) catalyzes ADP + Pi <--> ATP • F0 base embedded in inner membrane (H+ pass through this) • F0 + F1 = ATP synthase • The two pieces are connected via two additional proteins • Central rod-like gamma subunit • Peripheral complex that holds F1 in a fixed position • Location • Bacteria = plasma mem • Mitochondria = inner mem • Chloroplast = thylakoid 1 pH unit diff ATP matrix Intermembrane space H+

  25. The ATP Synthase mechanism • Binding Change Mechanism • E of H+ movement is used to force release of ATP from enzyme • Enz-ADP + Enz-Pi --> Enz-ATP G0’ ~ 0 • Each F1 active site progresses through three distinct conformations • Open (O), Loose (L), Tight (T) • Conformations differ in affinity for substrates and products • Central gamma () subunit rotates causing conformation changes 1 pH unit diff

  26. Rotational catalysis by ATP synthase • If true, should be able to run it backwards (ATP --> ADP + Pi) and watch gamma spin like a propeller blade 1 pH unit diff

  27. Other fxns of electrochemical gradient • E also used for: • Import of ADP + Pi (+H+) and export of ATP • Import of pyruvate (+H+) • Uncoupling sugar oxidation from ATP synthesis • Uncoupling proteins (UCP1-5) • UCP1/thermogenin, shuttles H+ back to matrix (endothermy) • Brown adipose tissue • Present in newborns (lost with age) and hibernating animals • Generates heat • 2,4-dinitrophenol (DNP) • Ionophore that can dissolve in inner membrane and shuttle H+ across • 1930’s stanford diet pill trials: overdose causes a fatal fever 1 pH unit diff

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