Metal Fluorides: Tools for Structural and Computational Analysis of Phosphoryl Transfer Enzymes

Abstract

The phosphoryl group, PO₃ ^–, is the dynamic structural unit in the biological chemistry of phosphorus. Its transfer from a donor to an acceptor atom, with oxygen much more prevalent than nitrogen, carbon, or sulfur, is at the core of a great majority of enzyme-catalyzed reactions involving phosphate esters, anhydrides, amidates, and phosphorothioates. The serendipitous discovery that the phosphoryl group could be labeled by “nuclear mutation,” by substitution of PO₃ ^– by MgF₃ ^– or AlF₄ ^–, has underpinned the application of metal fluoride (MF_x) complexes to mimic transition states for enzymatic phosphoryl transfer reactions, with sufficient stability for experimental analysis. Protein crystallography in the solid state and ¹⁹F NMR in solution have enabled direct observation of ternary and quaternary protein complexes embracing MF_x transition state models with precision. These studies have underpinned a radically new mechanistic approach to enzyme catalysis for a huge range of phosphoryl transfer processes, as varied as kinases, phosphatases, phosphomutases, and phosphohydrolases. The results, without exception, have endorsed trigonal bipyramidal geometry (tbp) for concerted, “inline” stereochemistry of phosphoryl transfer. QM computations have established the validity of tbp MF_x complexes as reliable models for true transition states, delivering similar bond lengths, coordination to essential metal ions, and virtually identical hydrogen bond networks. The emergence of protein control of reactant orbital overlap between bond-forming species within enzyme transition states is a new challenging theme for wider exploration.

This article is part of the Topical Collection “Phosphate Labeling and Sensing in Chemical Biology”; edited by Henning Jessen.