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Biochemistry

Biochemistry. Lec:5. Dr.Radhwan M. Asal Bsc . Pharmacy MSC ,PhD Clinical Biochemistry.

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Biochemistry

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  1. Biochemistry Lec:5 Dr.Radhwan M. Asal Bsc. Pharmacy MSC ,PhD Clinical Biochemistry

  2. In the TCA cycle, oxaloacetate is first condensed with an acetyl group from acetyl CoA, and then is regenerated as the cycle is completed ,Thus the entry of one acetyl CoA into one round of the TCA cycle does not lead to the net production or consumption of intermediates . A. Oxidative decarboxylation of pyruvate Pyruvate, the end-product of aerobic glycolysis, must be transported into the mitochondrion before it can enter the TCA cycle. Once in the matrix, pyruvate is converted to acetyl CoA by the pyruvate dehydrogenase complex

  3. [Note: The irreversibility of the reaction precludes the formation of pyruvate from acetyl CoA, and explains why glucose cannot be formed from acetyl CoA via gluconeogenesis.]pyruvate dehydrogenase complex is not part of the TCA cycle proper, but is a major source of acetyl CoA— the two-carbon substrate for the cycle.

  4. Pyruvate dehydrogenase deficiency: A deficiency in the pyruvate dehydrogenase complex is the most common biochemical cause of congenital lactic acidosis. This enzyme deficiency results in an inability to convert pyruvate to acetyl CoA, causing pyruvate to be shunted to lactic acid via lactate dehydrogenase B. Synthesis of citrate from acetyl CoA and oxaloacetate The condensation of acetyl CoA and oxaloacetate to form citrate is catalyzed by citrate synthase. This aldol condensation has an equilibrium far in the direction of citrate synthesis. Citrate synthase is allosterically activated by Ca2 + and ADP, and inhibitedby ATP, NADH, succinyl CoA, and fatty acyl CoA derivatives .

  5. The primary mode of regulation is also determined by the availability of its substrates, acetyl CoA and oxaloacetate. [Note: Citrate, in addition to being an intermediate in the TCA cycle, provides a source of acetyl CoA for the cytosolic synthesis of fatty acids , Citrate also inhibits phosphofructokinase, the rate-setting enzyme of glycolysis, and activates acetyl CoA carboxylase (the rate-limiting enzyme of fatty acid synthesis .

  6. C. Isomerization of citrate Citrate is isomerized to isocitrate by aconitase ,[Note: Aconitase is inhibited by fluoroacetate, a compound that is used as a rat poison. Fluoroacetate is converted to fluoroacetyl CoA, which condenses with oxaloacetate . D. Oxidation and decarboxylation of isocitrate Isocitrate dehydrogenase catalyzes the irreversible oxidative decarboxylation of isocitrate, yielding the first of three NADH molecules produced by the cycle, and the first release of CO2 .This is one of the rate-limiting steps of the TCA cycle. The enzyme is allosterically activated by ADP and Ca++, and is inhibited by ATP and NADH.

  7. E. Oxidative decarboxylation of α-ketoglutarate The conversion of α-ketoglutarate to succinyl CoA is catalyzed by the α-ketoglutarate dehydrogenase complex, which consists of three enzymatic activities .The mechanism of this oxidative decarboxylation is very similar to that used for the conversion of pyruvate to acetyl CoA. The reaction releases the second CO2 and produces the second NADH of the cycle.

  8. The coenzymes required are thiamine pyrophosphate, lipoic acid, FAD, NAD+, and coenzyme A. The equilibrium of the reaction is far in the direction of succinyl CoA a high-energy similar to acetyl CoA. a- Ketoglutarate dehydrogenase complex is inhibited by ATP, GTP, NADH, and succinyl CoA, and activated by Ca++. [Note: a- Ketoglutarate is also produced by the oxidative deamination or transamination of the amino acid, glutamate.]

  9. F. Cleavage of succinyl CoA Succinate thiokinase (also called succinyl CoA synthetase) cleaves the high-energy thioester bond of succinyl CoA .This reaction is coupled to phosphorylation of GDP to GTP. GTP and ATP are energetically interconvertible by the nucleoside diphosphate kinase reaction: The generation of GTP by succinate thiokinase is another example of substrate-level phosphorylation

  10. G. Oxidation of succinate Succinate is oxidized to fumarate by succinate dehydrogenase, producing the reduced coenzyme FADH2 .[Note: FADH 2 rather than NAD+, is the electron acceptor because the reducing power of succinate is not sufficient to reduce NAD+.] Succinate dehydrogenase is inhibited by oxaloacetate. H. Hydration of fumarate Fumarate is hydrated to malate in a freely reversible reaction catalyzed by fumarase (also called fumarate hydratase, .{Note: Fumarate is also produced by the urea cycle ,in purine synthesis ,and during catabolism of the amino acids, phenylalanine and tyrosine }

  11. I. Oxidation of malate Malate is oxidized to oxaloacetate by malate dehydrogenase .This reaction produces the third and final NADH of the cycle.[Note: Oxaloacetate is also produced by the transamination of the amino acid, aspartic acid.]

  12. ENERGY PRODUCED BY THE TCA CYCLE Two carbon atoms enter the cycle as acetyl CoA and leave as CO2. Four pairs of electrons are transferred during one turn of the cycle: three pairs of electrons reducing NAD+ to NADH and one pair reducing FAD to FADH 2. Oxidation of one NADH by the electron transport chain leads to formation of approximately three ATP, whereas oxidation of FADH2 yields approximately two ATP.

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