Pathways of Amino Acid Degredation

1. Pathways of Amino Acid Degredation Lehninger 18.3 1/16/09

2. Overview • We cannot store amino acids so they are converted into intermediates in metabolic or biosynthetic pathways. Malfunctions in these degradation pathways lead to a number of disease states. • The carbon chains of the amino acids are converted to various intermediates based on chemical logic. • Several enzyme cofactors are utilized in order to accomplish degradation.

3. Why do we need protein in our diet? • Essential amino acid uptake for protein synthesis • Amino acids can be converted to biologically active nitrogenous products • Carbon chains of amino acids are very reduced (e.g. good source of energy)

4. Disease states associated with defective amino acid degradation

5. Amino acids as a source of energy 6 entry points to TCA cycle: Fumarate Pyruvate Oxaloacetate Succinyl-CoA α-Ketoglutarate Acetyl-CoA Acetoacetyl-CoA

6. Six amino acids can be degraded to pyruvate (C3) PLP enzymes can catalyze: Transamination

7. Serine metabolism by PLP-enzymes Instead of electrons feeding into PLP, the β-hydroxy group can be eliminated from serine to ultimately form pyruvate. Serine can also be converted to glycine by serine hydroxymethyltransferase. PLP enzymes can catalyze: Transamination Elimination (Serine dehydratase) Retro-Aldol (SHMT)

8. SHMT is the main source of C1 pool

9. Glycine (C2) Cleavage Reaction • Similar to pyruvate dehydrogenase complex: • PLP-dependent decarboxylation • 2,3. Lipoamide reaction, PLP cleavage • 4. Loss of ammonia and one-carbon transfer to tetrahydrofolate • 5. Oxidation of lipoamide by NAD+ PLP enzymes can catalyze: Transamination (aminotransferase) Elimination (serine dehydratase) Retro-aldol (SHMT) Decarboxylation (glycine cleavage system)

10. Specificity of PLP-dependent reactions Arg357 Bacterial SHMT Dunathan hypothesis

11. Two amino acids can be degraded to oxaloacetate (C4)

12. Five amino acids can be degraded toα-ketoglutarate (C5)

13. Histidine ammonia lyase First step in histidine degradation Enzyme generates its own methylideneimidazolone cofactor (MIO) Retey, J. BBA 2003

14. Proline and arginine are degraded to glutamate semialdehyde

15. Seven amino acids can be degraded to acetyl-CoA

16. PLP-dependent kynureninase • Removal of the α-proton • Attack by activated water molecule • Cleavage of Cα-Cβ bond 1. β-keto 2. PLP enzymes can catalyze: Transamination (aminotransferase) Elimination (serine dehydratase) Retro-aldol (SHMT) Decarboxylation (glycine cleavage system) Retro-Claisen (kynureninase) 3.

17. Phenylalanine Hydroxylase (PheH) • Catalyzes first step in phenylalanine degradation • Deficiency in this step causes the genetic disease phenylketonuria (PKU)

18. Phenylketonuria Aspartame (Equal, Nutrasweet)

19. PheH is an aromatic amino acid hydroxylase

20. Control of activated oxygen species Ordered mechanism-no chemistry until both substrates bind

21. Multiple genetic diseases are due to further deficiencies in Phe catabolism

22. Discovery of Genetic Diseases The Incidence of Alkaptonuria: A Study in Chemical Individuality Archibald E. Garrod, 1902 If it be, indeed, the case that in alkaptonuria and the other conditions mentioned we are dealing with individualities of metabolism and not with the results of morbid processes the thought naturally presents itself that these are merely extreme examples of variations of chemical behaviour which are probably everywhere present in minor degree, and just as no two individuals of a species are absolutely identical in bodily structure neither are their chemical processes carried out on exactly the same lines.

23. Four amino acids can be converted to succinyl-CoA

24. Methionine degredation involves formation of a potent methylating agent

25. Branched chain amino acid degradation