Isotope Effects for Deuterium Transfer and Mutagenesis of Tyr187 Provide Insight into Controlled Radical Chemistry in Adenosylcobalamin-Dependent Ornithine 4,5-Aminomutase

• Published in: Biochemistry (Easton) Vol. 53; no. 33; pp. 5432 - 5443
• Main Authors: Makins, Caitlyn, Whitelaw, Doug A, Mu, Changhua, Walsby, Charles J, Wolthers, Kirsten R
• Format: Journal Article
• Language: English
• Published: United States American Chemical Society 26.08.2014
• Subjects: Catalytic Domain; Clostridium sticklandii - enzymology; Deuterium; Electron Spin Resonance Spectroscopy; Intramolecular Transferases - chemistry; Intramolecular Transferases - genetics; Intramolecular Transferases - isolation & purification; Intramolecular Transferases - metabolism; Kinetics; Models, Molecular; Mutagenesis, Site-Directed; Protein Conformation; Tyrosine - genetics
• ISSN: 0006-2960; 1520-4995
• DOI: 10.1021/bi5006706

Adenosylcobalamin-dependent ornithine 4,5-aminomutase (OAM) from Clostridium sticklandii utilizes pyridoxal 5′-phosphate (PLP) to interconvert d-ornithine to 2,4-diaminopentanoate via a multistep mechanism that involves two hydrogen transfer steps. Herein, we uncover features of the OAM catalytic mechanism that differentiate it from its homologue, the more catalytically promiscuous lysine 5,6-aminomutase. Kinetic isotope effects (KIEs) with dl-ornithine-3,3,4,4,5,5-d 6 revealed a diminished D k cat/K m of 2.5 ± 0.4 relative to a D k cat of 7.6 ± 0.5, suggesting slow release of the substrate from the active site. In contrast, a KIE was not observed on the rate constant associated with Co–C bond homolysis as this step is likely “gated” by the formation of the external aldimine. The role of tyrosine 187, which lies planar to the PLP pyridine ring, was also investigated via site-directed mutagenesis. The 25- and 1260-fold reduced k cat values for Y187F and Y187A, respectively, are attributed to a slower rate of external aldimine formation and a diminution of adenosylcobalamin Co–C bond homolysis. Notably, electron paramagnetic resonance studies of Y187F suggest that the integrity of the active site is maintained as cob(II)alamin and the PLP organic radical (even at lower concentrations) remain tightly exchange-coupled. Modeling of d-lysine and l-β-lysine into the 5,6-LAM active site reveals interactions between the substrate and protein are weaker than those in OAM and fewer in number. The combined data suggest that the level of protein–substrate interactions in aminomutases not only influences substrate specificity, but also controls radical chemistry.