Lysine 2,3-aminomutase

Lysine 2,3-aminomutase (KAM or LAM) (EC 5.4.3.2) is a radical SAM enzyme that facilitates the conversion of the amino acid lysine to beta-lysine.[1][2] [3][4] It accomplishes this interconversion using three cofactors and a 5'-deoxyadenosyl radical formed in a S-Adenosyl methionine (SAM) activated radical reaction pathway.[1] The generalized reaction is shown below:

Lysine 2,3-aminomutase
Identifiers
EC number5.4.3.2
CAS number9075-20-1
Databases
IntEnzIntEnz view
BRENDABRENDA entry
ExPASyNiceZyme view
KEGGKEGG entry
MetaCycmetabolic pathway
PRIAMprofile
PDB structuresRCSB PDB PDBe PDBsum

Structure

Shown on the right is the three-dimensional structure of the Lysine 2,3-aminomutase protein. The structure was determined by X-ray crystallography to 2.1 Angstrom resolution and was seen to crystallize as a homotetramer.[2] KAM was first purified and characterized in Clostridium subterminale for studies of Lysine metabolism.

Cofactors
Pyridoxal phosphate

Four key cofactors are required for the reaction catalyzed by the lysine 2,3-aminomutase enzyme. They are:

  • S-Adenosyl methionine (SAM): Helps generate the radical intermediate by borrowing an electron.[5]
  • Pyridoxal phosphate (PLP): Responsible for binding of the amino acid during reaction. The pi-system of this molecule facilitates radical delocalization during formation of an aziridinyl radical. The structure is given below:
  • Zinc metal: Required for coordination between the dimers in the protein.
  • Iron-sulfur cluster: A 4 iron-4 sulfur cluster is required for formation of a 5'-deoxyadenosyl radical. This radical then acts as the "stable" radical carrier in the reaction mechanism which transfers the radical to the amino acid.

Reaction Mechanism

The generalized reaction takes place in 5 steps:

  1. Radical Formation: A "stable" radical is formed through a radical SAM mechanism in which a S-adenosyl methionine forms a 5'-deoxyadenosyl radical.
  2. Enzyme Binding: Lysine 2,3-aminomutase binds to pyridoxal phosphate (PLP).
  3. Amino Acid Binding: The amino acid (Lysine or Beta-Lysine depending on forward or reverse reactions) binds to pyridoxal phosphate.
  4. Radical Transfer: The 5'-deoxyadenosyl radical is transferred to the amino acid and an aziridinyl radical is formed. In this configuration, the radical is stabilized by the pi-system of pyridoxal phosphate.
  5. Amino Acid Conversion: In the final step, the new amino acid is formed and the radical is returned to its more stable state on the 5'-deoxyadenosyl.

The reaction mechanism described above is shown below:

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References
  1. Frey PA (May 1993). "Lysine 2,3-aminomutase: is adenosylmethionine a poor man's adenosylcobalamin?". FASEB Journal. 7 (8): 662–70. doi:10.1096/fasebj.7.8.8500691. PMID 8500691.
  2. Lepore BW, Ruzicka FJ, Frey PA, Ringe D (September 2005). "The x-ray crystal structure of lysine-2,3-aminomutase from Clostridium subterminale". Proceedings of the National Academy of Sciences of the United States of America. 102 (39): 13819–24. Bibcode:2005PNAS..10213819L. doi:10.1073/pnas.0505726102. PMC 1236562. PMID 16166264.
  3. Aberhart DJ, Gould SJ, Lin HJ, Thiruvengadam TK, Weiller BH (1981). "Stereochemistry of lysine 2,3-aminomutase". J. Am. Chem. Soc. 103 (22): 6750–6752. doi:10.1021/ja00412a040.
  4. Zappia V, Barker HA (June 1970). "Studies on lysine-2,3-aminomutase. Subunit structure and sulfhydryl groups". Biochimica et Biophysica Acta. 207 (3): 505–13. doi:10.1016/s0005-2795(70)80013-7. PMID 5452674.
  5. Bhandari DM, Fedoseyenko D, Begley TP (2018). Mechanistic Studies on the Radical SAM Enzyme Tryptophan Lyase (NosL). Methods in Enzymology. 606. pp. 155–178. doi:10.1016/bs.mie.2018.06.008. ISBN 9780128127940. PMID 30097091.
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