1. Real Time Normalization of Fast Photochemical Oxidation of Proteins Experiments by Inline Adenine Radical Dosimetry
- Author
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Joshua S. Sharp, Jeffrey J. Persoff, Robert W. Egan, Sandeep K. Misra, and Scot R. Weinberger
- Subjects
0301 basic medicine ,Ultraviolet Rays ,Radical ,Photochemistry ,01 natural sciences ,Peroxide ,Article ,Analytical Chemistry ,Accessible surface area ,Reaction rate ,03 medical and health sciences ,chemistry.chemical_compound ,Protein structure ,Reactivity (chemistry) ,Protein Footprinting ,Hydrogen peroxide ,Fibrinopeptide B ,030304 developmental biology ,0303 health sciences ,Hydroxyl Radical ,Myoglobin ,Protein footprinting ,Chemistry ,Adenine ,010401 analytical chemistry ,0104 chemical sciences ,030104 developmental biology ,Spectrophotometry, Ultraviolet ,Hydroxyl radical ,Oxidation-Reduction - Abstract
Hydroxyl radical protein footprinting (HRPF) is a powerful method for measuring protein topography, allowing researchers to monitor events that alter the solvent accessible surface of a protein (e.g., ligand binding, aggregation, conformational changes, etc.) by measuring changes in the apparent rate of reaction of portions of the protein to hydroxyl radicals diffusing in solution. Fast Photochemical Oxidation of Proteins (FPOP) offers an ultrafast benchtop method for radical generation for HRPF, photolyzing hydrogen peroxide using a UV laser to generate high concentrations of hydroxyl radicals that are consumed on roughly a microsecond time scale. The broad reactivity of hydroxyl radicals means that almost anything added to the solution (e.g., ligands, buffers, excipients, etc.) will scavenge hydroxyl radicals, altering their half-life and changing the effective radical concentration experienced by the protein. Similarly, minute changes in peroxide concentration, laser fluence, and buffer composition can alter the effective radical concentration, making reproduction of data challenging. Here, we present a simple method for radical dosimetry that can be carried out as part of the FPOP workflow, allowing for measurement of effective radical concentration in real time. Additionally, by modulating the amount of radical generated, we demonstrate that effective hydroxyl radical yields in FPOP HRPF experiments carried out in buffers with widely differing levels of hydroxyl radical scavenging capacity can be compensated on the fly, yielding statistically indistinguishable results for the same conformer. This method represents a major step in transforming FPOP into a robust and reproducible technology capable of probing protein structure in a wide variety of contexts.
- Published
- 2018
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