Kinetics of DNA looping by Anabaena sensory rhodopsin transducer (ASRT) by using DNA cyclization assay

Sci Rep. 2021 Dec 9;11(1):23721. doi: 10.1038/s41598-021-03148-4.

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.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Anabaena / physiology*
  • Cyclization
  • DNA / chemistry*
  • DNA / genetics
  • DNA / metabolism*
  • DNA-Binding Proteins / metabolism
  • Gene Expression Regulation, Bacterial
  • Models, Biological
  • Nucleic Acid Conformation* / drug effects
  • Sensory Rhodopsins / metabolism*
  • Sodium Chloride / pharmacology
  • Spectrum Analysis

Substances

  • DNA-Binding Proteins
  • Sensory Rhodopsins
  • Sodium Chloride
  • DNA