Table 3.

FOXO parameters for synthesis, degradation, transport and PTMs

Process	2o rate constant (#min-1)	Enzyme	Enz #	1o rate const (min-1)	PTM modifying rate	Rate MF	Reference
Synthesis (NULL → FOXO)	0.0055	E2F1	300	5.5			[45] Figure 1
Cytoplasm → nuclear transport	-	-	-	0.1/0.55 = 0.182			[3], [46]
					Akt-Phos Pa	0.1	[46]
					IKK-Phos Pd	0.5	[47] Figure 1
					JNK-Phos Pe	10	[44]
Nuclear → cytoplasm transport	-	-	-	0.1 × 0.55 = 0.055			[3], [46]
					Akt-Phos Pa	10	[46]
					IKK-phos Pd	10	[47]
					JNK-Phos Pe	0.1	[44]
Nuclear → DNAbound transport	-	-	-	0.25			[48]
					Akt-Phos Pa	0.5	[49] Figure 6B
DNAbound → Nuclear transport	-	-	-	0.25 × 0.5 = 0.125			[48]
basal phosphorylation	5 × 10-5
basal dephosphorylation	1 × 10-6
akt_phos_ factor	6
ikk phos_factor	3
jnk phos_factor	2
FOXO → FOXO_Pa	akt phos_factor × basal phosphorylation	Akt	(104)	0.5			[50] Figure 1C
FOXO_Pa → FOXO	basal dephosphorylation	PP2A	5 × 105	0.5
FOXO → FOXO_Pd	ikk phos_factor × basal phosphorylation	IKK	(104)	0.5			[47]
FOXO_Pd → FOXO	basal dephosphorylation	PP2A	5 × 105	0.5
FOXO → FOXO_Pe	jnk phos_factor × basal phosphorylation	JNK	(104)	0.5			[44]
FOXO_Pe → FOXO	basal dephosphorylation	PP2A	5 × 105	0.5
FOXO → FOXO_pUb	1 × 10-6	SCF/MDM2	103	10-3			[45] Figure 1; also [51]
					Akt (Pa)	3	[45] Figure 1
					IKK (Pd)	22	[47] Figure 5F
Degradation (FOXO_pUb → NULL)	1 × 10-4	Proteasome	103	0.1			[45] Figure 1

Kinetic parameters of the FOXO module of the model. Where a second-order rate constant is given and the Enzyme is time-varying, the Enz # and first order rate constant columns show typical values when the process is activated. The PTM modifying rate refers to the way modifiable species are implemented in this system: if the PTM is present, then the basal rate for the process (in the 1o rate column) is multiplied by the entry in the Rate MF (Multiplicative Factor) column.