Distance distributions recovered from steady-state fluorescence measurements on thirteen donor-acceptor pairs with...

The end-to-end distance distribution of a flexible molecule was recovered from steady-state fluorescence energy transfer measurements using the method suggested by Cantor and Pechukas (Proc. Natl. Acad. Sci. USA 68, 2099-2101, 1971). In this method, the Förster distance (R 0) is varied by attaching different donor-acceptor (D-A) pairs to the flexible linker of interest. Distance distributions are then recovered from energy transfer efficiency measurements on the set of D-A pairs with differentR 0 values. Thirteen D-A pair compounds were synthesized withR 0 values ranging from 6 to 32 Å. Each compound contained a tryptamine donor linked by an alkyl chain (∼10 carbons) to 1 of 13 acceptors. Using these compounds, we have experimentally confirmed the Cantor and Pechukas method for recovering distance distributions. The measured transfer efficiencies, as a function ofR 0, were fit to the transfer efficiencies predicted for both Gaussian and skewed Gaussian distance distributions. The data support the existence of a skewed Gaussian distribution, and we believe that this is the first experimental observation of an asymmetric distribution for a flexible molecule using fluorescence resonance energy transfer measurements. Finally, the experimentally recovered distance distribution was found to be in good agreement with the distribution predicted from the rotational isomeric state model of Flory (Statistical Mechanics of Chain Molecules, John Wiley & Sons, New York, 1969, Chaps. 1, 3, and 5) but not with the predicted distribution for a freely rotating or freely jointed chain.