Nucleoside Tetra- and Pentaphosphates Prepared Using a Tetraphosphorylation Reagent Are Potent Inhibitors of Ribonuclease A.Shepard, S.M., Windsor, I.W., Raines, R.T., Cummins, C.C.
(2019) J Am Chem Soc 141: 18400-18404
- PubMed: 31651164
- DOI: https://doi.org/10.1021/jacs.9b09760
- Primary Citation of Related Structures:
6PVU, 6PVV, 6PVW, 6PVX
- PubMed Abstract:
Adenosine and uridine 5'-tetra- and 5'-pentaphosphates were synthesized from an activated tetrametaphosphate ([PPN] 2 [P 4 O 11 ], [PPN] 2 [ 1 ], PPN = bis(triphenylphosphine)iminium) and subsequently tested for inhibition of the enzymatic activity of ribonuclease A (RNase A). Reagent [PPN] 2 [ 1 ] reacts with unprotected uridine and adenosine in the presence of a base under anhydrous conditions to give nucleoside tetrametaphosphates. Ring opening of these intermediates with tetrabutylammonium hydroxide ([TBA][OH]) yields adenosine and uridine tetraphosphates ( p 4 A , p 4 U ) in 92% and 85% yields, respectively, from the starting nucleoside. Treatment of ([PPN] 2 [ 1 ]) with AMP or UMP yields nucleoside-monophosphate tetrametaphosphates ( cp 4 pA, cp 4 pU ) having limited aqueous stability. Ring opening of these ultraphosphates with [TBA][OH] yields p 5 A and p 5 U in 58% and 70% yield from AMP and UMP, respectively. We characterized inorganic and nucleoside-conjugated linear and cyclic oligophosphates as competitive inhibitors of RNase A. Increasing the chain length in both linear and cyclic inorganic oligophosphates resulted in improved binding affinity. Increasing the length of oligophosphates on the 5' position of adenosine beyond three had a deleterious effect on binding. Conversely, uridine nucleotides bearing 5' oligophosphates saw progressive increases in binding with chain length. We solved X-ray cocrystal structures of the highest affinity binders from several classes. The terminal phosphate of p 5 A binds in the P 1 enzymic subsite and forces the oligophosphate to adopt a convoluted conformation, while the oligophosphate of p 5 U binds in several extended conformations, targeting multiple cationic regions of the active-site cleft.
Department of Chemistry , Massachusetts Institute of Technology , Cambridge Massachusetts 02139 , United States.