Fig. 4: DNA non-ligatable nicks within nucleosome core particles are detected by PARP1.

a Structural model of the nucleosomes generated from PDB 4JJN, with sites of each nick site marked along the structure (with SHL0 labeled red, SHL-2.5 labeled cyan, and SHL−4.5 labeled yellow). Underneath, a model was generated for the partial nucleosome unwrapping that occurs at DNA tensions greater than 5 pN. b Lifetimes and on rate values for the binding kinetics of NCP or control nick binding. Bar graphs are colored by nick position in the same way that the model is shown, and low-tension datasets are shown on the left with high tension datasets on the right (hatched bars). Values for each bar graph were determined by fitting an exponential decay to the dwell times/gap times from four biological replicates into CRTD/CGTD plots (two different batches of nuclear extracts and NCPS pooled together). See Table 1 for bar values and Supplementary Fig. 4 for all datapoints associated with these plots as well as their fits and associated errors on their CRTD/CGTD plots. Error bars represent error of the fit from the plotting.