Hydrogen-Tritium Exchange Kinetics of Soybean Trypsin Inhibitor (Kunitz). Solvent Accessibility in the Folded Conformation

The hydrogen exchange kinetics of Kunitz soybean trypsin inhibitor (STI) has been studied at pH 2, 3, and 6.5. From the temperature dependence of proton exchange at low pH, the contribution of major, reversible protein unfolding to the hydrogen exchange kinetics has been determined. Exchange directly from the folded conformation is characterized by an apparent activation energy (E*_app) of approximately 25 kcal/mol, close to that of the chemical exchange step. At pH 6.5 the protein is more temperature stable than at low pH, and exchange of all but ≃8 protons can be observed to exchange with E*_app ≃ 27 kcal/mol. This implies that all but ≃8 protons are accessible to exchange with solvent in the solution structure of folded STI. Estimates can be made of the average number of water molecules per molecule of STI consistent with a solvent accessibility model of hydrogen exchange kinetics. These estimates indicate that very few water molecules within the protein matrix are necessary to explain the exchange data. Calculations are done for the STI hydrogen exchange kinetics at pH 3, 30°, approximating STI structure by a sphere of radius = 18 Å. These calculations indicate an average of ≃4 water molecules in the shell from 13 to 16 Å from the center of the molecule, while <1 water molecule is indicated in the innermost 13 Å. These calculations also suggest that there are ≃190 water molecules associated with the outermost 1.5-2 Å of the sphere. While these values are consistent with a hydrophobic region in the central protein matrix, they indicate more solvent accessibility in the outer 1/3 of the molecule than the static accessibility estimates made from X-ray coordinates. Our results suggest that any protein movements or fluctuations responsible for solvent accessibility in proton exchange processes are localized in the outer regions of the globular structure.