Fig. 6: Transition analysis of immobilized SUL25 substrates in the presence of Sin Q115R.
From: Direct observation of subunit rotation during DNA strand exchange by serine recombinases
A A Gaussian-convoluted transition density plot (TDP) from unstitched dynamic time trajectories of SUL25 in the presence of Sin Q115R. B A clustering algorithm is applied to determine the overall state configuration. The most sufficient cluster model is determined by the BIC, which here has the lowest value when the number of states (J) = 434, with E1 = 0.16 (0.04), E2 = 0.29 (0.02), E3 = 0.50 (0.03) and E4 = 0.77 (0.04). C Results from 4-state model inference. The relative number of transitions for all possible states is shown (blue bars). D, E Exponential (red) and biexponential (blue) decay functions fit to cumulative dwell time histograms for both cnr (D) and cr (E) states. F Comparison between rate constants of each possible transition observed for Sin Q115R-catalysed recombination in the absence (at 21 and 37 °C) and presence of Mg2+ (37 °C) and for Tn3 NM catalysed recombination (no Mg2+ at 21 °C). The error bars represent the weighted average of the biexponential fitting parameters determined using the bootstrapping feature in BOBA-FRET (3× standard deviation for 100 bootstrapped samples); see 'Materials and Methods' for further details.
