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[Preprint]. 2024 May 25:2023.07.14.549009. Originally published 2023 Jul 15. [Version 2] doi: 10.1101/2023.07.14.549009

PMC10369947.1; 2023 Jul 15
PMC10369947.2; 2024 May 25

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Figure 2. — GAF-DBD explores free DNA by 1-dimensional diffusion. a, 3-color smFRET experiment distinguishes whether GAF-DBD is bound to Cy7-labeled Site 1, Cy5-labeled Site 2, or a nonspecific site on Drosophila hsp70 promoter DNA. b, A single-molecule trajectory shows GAF-DBD sliding back-and-forth on the DNA between two cognate motifs. Binding site assignment is shown below as a colored ribbon. c, 55 binding events shown as a rastergram d, Zoomed-in view of the boxed region in b. e, GAF-DBD dwell times on Site 1, Site 2, or nonspecific site on the DNA at regular (6.25 mM) or low (3 mM) MgCl₂. f, Schematic of GAF-DBD sliding on DNA. Circles represent GAF-DBD. Green circles indicate GAF-DBD binding to a nonspecific site; blue circle, GAF-DBD binding to Site 1; red circle, GAF-DBD binding to Site 2.