Despite the fact that the human eye contains three different opsin proteins that respond to different wavelengths of light, all of the opsin proteins in one's eyes uses the same pigment 11-cis-retinal. So if the three different opsin proteins all use the same pigment, how do they respond to different wavelengths?
Well, in free solution, 11-cis-retinal absorbs light of wavelength 440 nm in its protonated form and in its 365 nm deprotonated form, yet scientists have found opsins from different species with absorption maxima ranging from 360 nm to 560 nm. When retinal binds to the opsin proteins, it sits in a cavity at the center of the protein. Therefore, the protein has great control over the chemical environment surrounding retinal and can therefore alter its photophysical properties and change its spectral sensitivity.
Biochemists have identified a number of different amino acid positions within the opsin protein that are responsible for the spectral tuning of retinal (for a review, see S. Yokohama (2002) Molecular evolution of color vision in vertebrates.
Gene 300: 69. ]doi:10.1016/S0378-1119(02)00845-4[/url]). Quantum mechanical and other computational chemistry studies are beginning to elucidate the physiochemical basis for these spectral changes (Altun, Yokoyama, and Morokuma. (2008) Quantum Mechanical/Molecular Mechanical Studies on Spectral Tuning Mechanisms of Visual Pigments and Other Photoactive Proteins.
Photochem Photobiol. 84:845. http://dx.doi.org/10.1111/j.1751-1097.2008.00308.x
PMC2575004).