Presented here is a protocol for performing single-molecule Förster resonance energy transfer to study HJ resolution. Two-color alternating excitation is used for determining the dissociation constants. Single-color time lapse smFRET is then applied in real-time cleavage assays to obtain the dwell time distribution prior to HJ resolution.
Sobhy, M. A., Bralić, A., Raducanu, V., Tehseen, M., Ouyang, Y., Takahashi, M., Rashid, F., Zaher, M. S., Hamdan, S. M. Single-Molecule Förster Resonance Energy Transfer Methods for Real-Time Investigation of the Holliday Junction Resolution by GEN1. J. Vis. Exp. (151), e60045, doi:10.3791/60045 (2019).