Kinetics of DNA looping by Anabaena sensory rhodopsin transducer (ASRT) by using DNA cyclization assay
Jae Jin Lee (Sogang University)
S.H. Kim (Kavli institute of nanoscience Delft, TU Delft - BN/Chirlmin Joo Lab)
Keon Ah Lee (Sogang University)
Kimleng Chuon (Sogang University)
Kwang Hwan Jung (Sogang University)
Doseok Kim (Sogang University)
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Abstract
DNA cyclization assay together with single-molecule FRET was employed to monitor protein-mediated bending of a short dsDNA (~ 100 bp). This method provides a simple and easy way to monitor the structural change of DNA in real-time without necessitating prior knowledge of the molecular structures for the optimal dye-labeling. This assay was applied to study how Anabaena sensory rhodopsin transducer (ASRT) facilitates loop formation of DNA as a possible mechanism for gene regulation. The ASRT-induced DNA looping was maximized at 50 mM of Na+, while Mg2+ also played an essential role in the loop formation.
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