Miranda E. Simmons and Robert W. Zurales. Middle Georgia College, Cochran, GA
We are interested in the effect nearby amino acid side chains have on the pKa of a water molecule bound to a Zn2+ ion in the enzyme carbonic anhydrase (CA). Our group previously showed that we could calculate reasonably well the pKa in water of actual small molecules that mimic CA. We also showed that a small model of the enzyme that had a water molecule and three imidazole rings as Zn2+ ligands was much more acidic in less polar solvents because the acid form has a greater charge than the conjugate base. We now report our results for a larger model of CA that includes parts of five additional amino acids, two of which are negatively charged. In this model system, the conjugate base has a greater charge than the acid form. We obtained positions of the selected atoms from the 2CBA structure in the Protein Data Bank, added hydrogen atoms, performed a partial optimization using a 6-31+G(d) basis set and the B3LYP level of theory, obtained improved electronic energies using a 6-311++G(2d,2p) basis set, and calculated the energy of the aqua and hydroxy form in various solvents using the PCM continuum model.