Table 1. Model Parameters.
Parameter | Brief description | Value | Source |
---|---|---|---|
Association rate to the nucleoid of cytosolic ParA | 0.19 s–1 | As Surovtsev et al., 2016a. Based on in vitro measurement from Vecchiarelli et al., 2010. Results in 95% ParA nucleoid association in the absence of a plasmid. | |
Dissociation due to basal hydrolysis rate of ParA | 0.01 s–1 | Based on in vitro measurement from Hwang et al., 2013; Vecchiarelli et al., 2013. | |
Tether dissociation due to plasmid stimulated hydrolysis of ParA | 0.01–3 s–1 | Sweeped over in this study. | |
Diffusion coefficient of the plasmid | 3x10–3 μm2s–1 | As Surovtsev et al., 2016a. Based on MSD of a Δpar plasmid. |
|
Diffusion coefficient of ParA home position on the nucleoid | 3.22x10–4 to 0.29 μm2s–1 | Sweeped over in this study. | |
Diffusion coefficient of DNA-bound ParA due to chromosomal fluctuations | 0.01 μm2s–1 | As Surovtsev et al., 2016a; Based on Javer et al., 2014 and Weber et al., 2010. | |
Width of the cell | 0.95 μm | This study | |
Length of the cell | 2.5–4.34 μm | This study | |
Simulation time step | 0.001 s | This study | |
Radius Plasmid | 0.05 μm | As Surovtsev et al., 2016a. Estimate from Sanchez et al., 2015. | |
Radius ParA | 0.002 μm | As Surovtsev et al., 2016a. Based on ParA crystal structure from Leonard et al., 2005. | |
Width of elastic fluctuations of the chromosome along long cell axis | 0.1 μm | As Surovtsev et al., 2016a. | |
Width of elastic fluctuations of the chromosome along short cell axis | 0.05 μm | As Surovtsev et al., 2016a. | |
Number of ParA dimers | 500 | Midrange estimate from Adachi et al., 2006; Bouet et al., 2005; Lim et al., 2014. | |
Number of Plasmids | 1–5 | This study |