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. 2018 Dec 27;7:e40497. doi: 10.7554/eLife.40497

Figure 4. Residence times and dynamics of bound Zld and Bcd molecules.

(A) Raw survival probabilities of trajectories at all frame rates. Calculated over 77869, 81660, 11003, at 10 ms, 107998, 42698, 8990 at 100 ms, and 2420, 14487, 47681 at 500 ms, trajectories for His2B, Zld, and Bcd respectively. (B) Uncorrected two-exponent fits to the survival probability distributions obtained from the 500 ms frame rate data. Dark solid lines are the mean over fits from three embryos and the shaded regions indicate the standard error. (C) Bias corrected quantification of the slow residence times for Zld (5.56 ± 0.72 s) and Bcd (2.33 ± 0.71 s). Error bars indicate standard error over three embryos for a total of 188 and 171 nuclei for Bcd and Zld, respectively. (D) MSD/τ curves for His2B, Bcd, and Zld at 500 ms frame rates plotted on log-log-scale. For anomalous diffusion MSD(τ)=Γτα, where α is the anomalous diffusion coefficient. For MSD/τ, in log-log space, the slope is thus 0 for completely free diffusion that is when α = 1, and sub-diffusive(0<α<1), motions display higher negative slopes, with lower α corresponding to more anomalous motion.

Figure 4.

Figure 4—figure supplement 1. Mean square displacement curves.

Figure 4—figure supplement 1.

MSD curves for His2B, Zld, and BCD, at all frame rates plotted on log-log-scale. Calculated over 77869, 81660, 11003, at 10 ms, 107998, 42698, 8990 at 100 ms, and 2420, 14487, 47681 at 500 ms, trajectories for His2B, Zld, and Bcd respectively. Error bars show standard error over all trajectories.
Figure 4—figure supplement 2. Inference of residence times from single-molecule trajectories.

Figure 4—figure supplement 2.

(A) Example fits of two-exponent model (black line) to the survival probability (SP) distributions data from a single embryo for each protein studied (B) Bias corrected residence time (RT) as a function of the minimum trajectory length threshold used for fitting, the reported inferred residence time is from when the fit parameter plateaus at a threshold of 2.02 s for both proteins (C) Comparison of inferred residence times from 100 ms vs 500 ms frame rate data sets as a function of the minimum trajectory length fitting threshold.