A system is described that allows for the delineation of the factors t
hat effect the complexation of retinal to the apoprotein of bacteriorh
odopsin. This complexation is investigated in various states of hydrat
ion, in H2O and D2O, at a variety of pH levels, with mutant membranes
and labeled retinals. The complexation reaction was also investigated
using absorption spectroscopy and vibrational spectra using difference
Fourier transform infrared spectroscopy. The results demonstrate the
crucial role of water in controlling the protein conformations that le
ad to protein/ligand binding reactions and begin to shed new Light on
the protein control of a reaction that normally cannot take place in a
n aqueous medium.