Wednesday, May 21, 2008 - 9:45 AM
Medical Arts Building, Rm M-136 (Queensborough Community College)
586

Conformational Analysis of cADPR and cADPR Analog Agonists and Antagonists Using PSEUROT, Molecular Mechanics, and Ab Inito Calculations

Steven M. Graham, St. John's University, Queens, NY

Cyclic adenosine diphosphate ribose (cADPR), a cyclic metabolite of NAD+, is a second messenger that causes release of calcium from intracellular stores. For some time our lab has been attempting to unravel the structure-activity relationships in cADPR and cADPR analogs, in particular the conformation of the 5-membered furanose rings. The key feature of the PSEUROT program is its ability to convert 1H-1H NMR coupling constants, via a Karplus equation, to exocyclic H-C-C-H torsion angles (φexo); these angles are then converted to the endocyclic ring torsions (φendo) needed to describe the conformation of the furanose (φexo = A•φendo + B). The �A� and �B� parameters are specific to a particular furanose configuration (e.g. ribose, arabinose, deoxyribose, etc.) and are supplied by the PSEUROT program, at least for the common furanoses. In the event that a particular furanose is not in the PSEUROT database, or if one suspects the supplied parameters may not be appropriate (as in cADPR), then the �A� and �B� parameters must be calculated, typically from a survey of in silico structures obtained from molecular modeling. This talk will focus on our efforts to determine the appropriate �A� and �B� parameters for cADPR via molecular mechanics, semi-empirical, and ab initio calculations, and their effect on the PSEUROT calculations.