Effect of the PHY Domain on the Photoisomerization Step of the Forward P r →P fr Conversion of a Knotless Phytochrome

Phytochrome photoreceptors operate via photoisomerization of a bound bilin chromophore. Their typical architecture consists of GAF, PAS and PHY domains. Knotless phytochromes lack the PAS domain, while retaining photoconversion abilities, with some being able to photoconvert with just the GAF domain. Therefore, we investigated the ultrafast photoisomerization of the Pr state of a knotless phytochrome to reveal the effect of the PHY domain and its “tongue” region on the transduction of the light signal. We show that the PHY domain does not affect the initial conformational dynamics of the chromophore. However, it significantly accelerates the consecutively induced reorganizational dynamics of the protein, necessary for the progression of the photoisomerization. Consequently, the PHY domain keeps the bilin and its binding pocket in a more reactive conformation, which decreases the extent of protein reorganization required for the chromophore isomerization. Thereby, less energy is lost along nonproductive reaction pathways, resulting in increased efficiency.
More reactive, more efficient: The influence of the PHY domain on the photoconversion of a knotless phytochrome was investigated. The interaction of its “tongue” region with the GAF domain keeps the bilin chromophore and the binding pocket in a more reactive conformation. This results in accelerated reorganization of the protein environment necessary to accommodate the photoisomerization of the chromophore and, in effect, in an increased overall quantum efficiency.