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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

Figure 3.

Figure 3.

Nucleosome blocks GAF-DBD 1D sliding beyond SHL7. a, Schematics of nucleosome constructs where the nucleosomal Cy7-labeled cognate site (blue) is placed at SHL7, SHL5, or SHL3 locations and the other Cy5-labeled cognate site (red) is on linker DNA. The nucleosome is positioned by the Widom 601 sequence flanked by 40 bp linker DNA on both sides (40-N-40). b-d, Representative single-molecule trajectories of GAF-DBD binding to linker or nucleosomal sites at SHL7 (b), SHL5 (c) and SHL3. e-g, Binding site rastergrams for GAF-DBD on nucleosome constructs where the Cy7-labeled motif is located at SHL7 (e), SHL5 (f) or SHL3 (g). h, GAF-DBD binding categories for each construct. N=485 for SHL7, N=260 for SHL5, N=272 for SHL3. i, Categories of binding events on SHL7 construct. j, GAF-DBD motif dwell times on SHL7, linker site and nonspecific sites on the SHL7 construct.