Table 1. Sensitivity analysis of TF... | Rockefeller University Press

Table 1.

Sensitivity analysis of TF clustering simulations in very small cells

Parameters	Reaction/result	Number of molecules/cluster			Number of clusters/nucleus
Parameters	Reaction/result	Swi4	Mbp1	Swi6	Swi4	Mbp1	Swi6
k_{on1,3 s/m} = 3,500 k_{on2,4 s/m} = 35,000	Default parameters	4.27	5.15	5.38	2.2	10.1	15.2
100-fold lower k_{on1,2,3,4 s/m}	All dynamics slow down	4.09	5.26	5.38	2.1	9.7	13.9
20-fold larger K_s/m1	With k_on1 constant, this is an increased rate for Swi4d/Mbp1d dissociating from DNA relative to SBF/MBF	4.27	4.90	5.39	2.2	11.8	17.0
20-fold larger K_s/m2	With k_on2 constant, this is an increased rate for Swi6 dissociation from Swi4/Mbp1	4.09	4.97	4.33	2.3	11.5	0.6

Parameters	Reaction/result	Number of molecules/cluster			Number of clusters/nucleus
Parameters	Reaction/result	Swi4	Mbp1	Swi6	Swi4	Mbp1	Swi6
k_{on1,3 s/m} = 3,500 k_{on2,4 s/m} = 35,000	Default parameters	4.27	5.15	5.38	2.2	10.1	15.2
100-fold lower k_{on1,2,3,4 s/m}	All dynamics slow down	4.09	5.26	5.38	2.1	9.7	13.9
20-fold larger K_s/m1	With k_on1 constant, this is an increased rate for Swi4d/Mbp1d dissociating from DNA relative to SBF/MBF	4.27	4.90	5.39	2.2	11.8	17.0
20-fold larger K_s/m2	With k_on2 constant, this is an increased rate for Swi6 dissociation from Swi4/Mbp1	4.09	4.97	4.33	2.3	11.5	0.6

k_on1s/m, on rate for Swi4/Mbp1 binding to DNA; k_on2s/m, on rate for Swi6 binding to Swi4 or Mbp1; k_on3s/m, on rate for SBF/MBF binding to DNA; k_on4s/m, on rate for Swi6 binding to Swi4/Mbp1 DNA complexes; K_s/m1, dissociation constant for monomer Swi4/Mbp1 binding to DNA; K_s/m2, dissociation constant for monomer Swi6 binding monomer Swi4 and Mbp1. Simulated cell size was 10 fl.

[ViewLarge]