title: PNP diminishes guanosine glycosidic bond strength through restrictive ring pucker as a precursor to phosphorylation.
abstract: Purine nucleoside phosphorylase is a transferase that catalyzes the addition of phosphate and removal of a purine base from guanosine and similar nucleosides. Here the interplay between sugar puckering conformation, the enzyme, and the perceived course of the reaction is examined using QM/MM FEARCF dynamics simulations. The enzyme biases the guanosine sugar ring toward a flattened (4)E conformer as a step that is critical to the success of the phosphorylation reaction. The C4' endo conformer allows the nonbonded ring oxygen orbital to align and donate electrons into the antibonding glycosidic bond orbital, thus weakening the bond. This conformational preference is due to sustained and directed noncovalent interactions anchored by the phosphate nucleophile's hydrogen bonds to the sugar C2' and C3' hydroxyls. In so doing, PNP alters the solution sugar ring pucker preferences as part of its catalytic reaction barrier lowering function.
authors.affiliation: Scientific Computing Research Unit and Department of Chemistry, University of Cape Town, Rondebosch 7701, South Africa.
authors.forename: Christopher B
authors.initials: CB
authors.lastname: Barnett
authors.forename: Kevin J
authors.initials: KJ
authors.lastname: Naidoo
mesh_terms: D020134:Catalytic Domain; D006027:Glycosides / Q000737:chemistry*; D006151:Guanosine / Q000737:chemistry*; D056004:Molecular Dynamics Simulation; D010766:Phosphorylation; D011683:Purine-Nucleoside Phosphorylase / Q000737:chemistry* / Q000378:metabolism; D013499:Surface Properties; D013816:Thermodynamics; D014618:Vacuum; D014867:Water / Q000737:chemistry
chemical_list: D006027:Glycosides; D014867:Water; D006151:Guanosine; D011683:Purine-Nucleoside Phosphorylase