Probing the Unified Radical Generation Steps in Radical SAM Enzyme Chemistry

NIH RePORTER · NIH · F32 · $64,926 · view on reporter.nih.gov ↗

Abstract

Project Summary. The radical S-adenosyl-L-methionine (SAM) superfamily of enzymes are found in all kingdoms of life and use an iron-sulfur cluster to catalyze a broad range of reactions. These diverse reactions are surprisingly initiated by a unified process which begins with the binding of co-substrate/co-factor, SAM, to an iron-sulfur cluster. Reductive cleavage of SAM by the iron-sulfur cluster generates the reactive radical intermediate, a 5- deoxyadenosyl radical. This species is a potent hydrogen atom abstractor and is widely accepted as the species responsible for radical SAM enzymes’ reactivity. The generation of this intermediate has yet to be fully understood since its presence in the reaction pathway has until recently only been inferred from indirect detection methods. Building on the recent direct observation of this intermediate using photolysis in the absence of substrate, as well as through the use non-native substrates, this project aims to capture and characterize the radical intermediate under catalytically relevant conditions, and to link an organometallic intermediate found to be central to catalysis to this potent organic radical intermediate. Several approaches will be used to probe the presence of these intermediates in the reaction pathway resulting in substrate radical generation. A peptide mimic of the macromolecular substrate of a well-studied radical SAM enzyme will be used to capture the 5- deoxyadenosyl radical as a stable species. Secondly, another well-studied SAM enzyme whose reaction can be slowed under particular conditions will allow for the opportunity to study the reactive radical intermediates. These two enzyme systems will be used with photolysis, rapid freeze quench, cryoreduction, and sequential annealing techniques. Characterization of intermediates will be carried out using electron paramagnetic resonance and electron nuclear double resonance spectroscopic experiments, as well as X-ray crystallography. The use of SAM isotopologues will perturb the spectroscopic signals of potential intermediates, allowing structural identification of transient intermediates. The objective of the proposed research is to connect proposed catalytic intermediates to function and provide electronic and geometric details to aid in elucidation of the mechanism of radical initiation by radical SAM enzymes. Understanding this biochemical reaction will allow for the application of these enzymes as a powerful biocatalyts capable of numerous challenging reactions and for the potential to pharmaceutically target radical SAM enzymes in humans and pathogens. I aim to launch an independent research career in bioinorganic chemistry. This field is made up of facets of inorganic chemistry, molecular biology, physics and biochemistry and can have profound impacts on physiology, pharmacology and toxicology. In order to best be able to contribute to this field, my training must expand to include aspects of biological sciences. This fell...

Key facts

NIH application ID
10155128
Project number
1F32GM140713-01
Recipient
MONTANA STATE UNIVERSITY - BOZEMAN
Principal Investigator
Maike Nicole Lundahl
Activity code
F32
Funding institute
NIH
Fiscal year
2021
Award amount
$64,926
Award type
1
Project period
2021-03-01 → 2024-02-29