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Table 1 Parameter values used for the modelling

From: Computational modelling and analysis of the molecular network regulating sporulation initiation in Bacillus subtilis

Rate

Description

Mathematical form

Parameter values

 

tr1

LacI transcription

constant: k

k=0.1 nMs -1

Fitted

tl1

LacI translation

mass action: k.[lacI_t]

k = 0.2 s -1

Fitted

k1

LacI inactivation by IPTG

mass action: k .[lacI_t].[IPTG]

k=0.000175 nM -1?s -

[44]

k2

LacI reactivation

mass action: k.[LacI_d]

k=0.016 s -1

[44]

tr2

KinA transcription

hill function: k 1 + k 2 K L 2 K L 2 + Lac _ I 2 1 + k 3 S p o 0 A ~ P 2 K S 2 + S p o 0 A ~ P 2

k1=0.0275 nMs -1

[16],[24]

k2=0.24 nMs -1

k3=1.95 nMs -1

KL=50 nM

KS=2100 nM

tl2

KinA translation

mass action: k.[kinA_t]

k=0.0659 s -1

Fitted

k3

KinA dimerization

mass action: k.[KinA] 2

k=0.001 nM -1?s -1

Fitted

k4

KinA dimer dissociation

mass action: k.[KinA:KinA]

k=0.25 s -1

Fitted

k5

KinA dimer auto-phosphorylation

mass action: k.[KinA:KinA].[SS]

k=0.001 nM -1?s -1

Fitted

tr3

Spo0F transcription

hill function: k 1 + k 2 S p o 0 A ~ P 2 K S 2 + S p o 0 A ~ P 2

k1=0.02 nMs-1

[16],[24]

k2=0.1 nMs-1

KS=50 nM

tl3

Spo0F translation

mass action: k.[Spo0F]

k=0.0723 s-1

[16]

k6

Spo0F phosphorylation

mass action: k.[Spo0F] [KinA:KinA~P]

k=0.00039 nM -1?s -1

[64]

k7

Spo0F dephosphorylation

mass action: k.[Spo0F~P]

k=0.05 s -1

 

tr4

Spo0B transcription

constant: k

k=0.2384 nMs -1

Fitted

tl4

Spo0B translation

mass action: k.[Spo0B]

k=0.1076 s -1

Fitted

k8

Spo0B phosphorylation

mass action: k.[Spo0B] [Spo0F~P]

k=0.00001 nM -1?s -1

[64]

tr5

Spo0A transcription

hill function: k1 K k 1 K k 1 + S p o 0 A ? P +k2 S p o 0 A ? P 2 K k 2 2 + S p o 0 A ? P 2

k1=0.01388 nMs -1

[16]

k=0.1388 nMs -1,

Kk1=100 nM,

Kk2=150 nM

tl5

Spo0A translation

mass action: k.[Spo0A]

k=0.2143 s -1

Fitted

k9

Spo0A phosphorylation

mass action: k.[Spo0A] [Spo0B~P]

k=0.0008 nM -1?s -1

[64]

k10

Spo0A dephosphorylation

mass action: k.[Spo0~P]

k=0.05 s -1

 

tr6

spollA transcription

hill function: k1+k2 S p o 0 A ? P 4 K k 4 + S p o 0 A ? P 4

k1=0.0277 nMs -1

[16],[24]

k2=0.4166 nMs -1

Kk=140nM

tl6_A

AA translation

mass action: k [spollA_t]

k=0.1250 s -1

Fitted

tl6_B

AB translation

mass action: k [spollA_t]

k=0.0555 s -1

Fitted

tl6_C

AC translation

mass action: k [spollA_t]

k=0.0138 s -1

Fitted

tr7

spollE transcription

hill function: k1+k2 S p o 0 A ? P 4 K k 4 + S p o 0 A ? P 4

k1=0.0208 nMs -1

[16],[24]

k2=0.3125 nMs -1

 

Kk=230 nM

tl7

IIE translation

mass action: k [spollE_t]

k=0.0138 s -1

[16]

tr8

spollG transcription

hill function: k1+k2 S p o 0 A ? P 4 K k 4 + S p o 0 A ? P 4

k1=0.0222 nMs -1

[16],[24]

k2=0.7290 nMs -1

Kk=1700 nM

tl8_A

GA translation

mass action: k [spollG_t]

k=0.0034 s -1

[16]

tl8_B

GB translation

mass action: k [spollG_t]

k=0.0138 s -1

[16]