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The binding of ß- and -cyclodextrins to glycogen phosphorylase b: Kinetic and crystallographic studies

¹ Institute of Physical Chemistry, National Center for Scientific Research "Demokritos," Athens, Greece
² Institute of Organic and Pharmaceutical Chemistry, and
³ Institute of Biological Research and Biotechnology, The National Hellenic Research Foundation, Athens 11635, Greece

Reprints requests to: Nikos G. Oikonomakos, Institute of Organic and Pharmaceutical Chemistry, The National Hellenic Research Foundation, 48 Vas. Constantinou Avenue, Athens 11635, Greece; e-mail: ngo{at}eie.gr; fax: 30-210-7273758(831).

A number of regulatory binding sites of glycogen phosphorylase (GP), such as the catalytic, the inhibitor, and the new allosteric sites are currently under investigation as targets for inhibition of hepatic glycogenolysis under high glucose concentrations; in some cases specific inhibitors are under evaluation in human clinical trials for therapeutic intervention in type 2 diabetes. In an attempt to investigate whether the storage site can be exploited as target for modulating hepatic glucose production, -, ß-, and -cyclodextrins were identified as moderate mixed-type competitive inhibitors of GPb (with respect to glycogen) with K_i values of 47.1, 14.1, and 7.4 mM, respectively. To elucidate the structural basis of inhibition, we determined the structure of GPb complexed with ß- and -cyclodextrins at 1.94 Å and 2.3 Å resolution, respectively. The structures of the two complexes reveal that the inhibitors can be accommodated in the glycogen storage site of T-state GPb with very little change of the tertiary structure and provide a basis for understanding their potency and subsite specificity. Structural comparisons of the two complexes with GPb in complex with either maltopentaose (G5) or maltoheptaose (G7) show that ß- and-cyclodextrins bind in a mode analogous to the G5 and G7 binding with only some differences imposed by their cyclic conformations. It appears that the binding energy for stabilization of enzyme complexes derives from hydrogen bonding and van der Waals contacts to protein residues. The binding of -cyclodextrin and octakis (2,3,6-tri-O-methyl)--cyclodextrin was also investigated, but none of them was bound in the crystal; moreover, the latter did not inhibit the phosphorylase reaction.

Keywords: Glycogen phosphorylase; -cyclodextrin; ß-cyclodextrin; -cyclodextrin; oligosaccharide binding; protein-carbohydrate interactions; X-ray crystallography

Abbreviations: GP, glycogen phosphorylase • GPb, muscle glycogen phosphorylase b • GPa, muscle glycogen phosphorylase a • glucose, -d-glucose • Glc-1-P, -d-glucose 1-phosphate • -,ß-,-CD, -,ß-,-cyclodextrin • TMCD, octakis (2,3,6-tri-O-methyl)--cyclodextrin • G5, maltopentaose • G7, maltoheptaose • RMSD, root-mean-square deviation

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