603078
stoichiometry: 1.0
species: sigb meta
type: SpeciesReference

603114
stoichiometry: 1.0
species: sigb meta
type: SpeciesReference

kbd meta
is: GO:0006508
constant: true
value: 5.8E-9
name: kbd
type: Parameter

603162
stoichiometry: 1.0
species: x meta
type: SpeciesReference

603126
stoichiometry: 1.0
species: lacz meta
type: SpeciesReference

x meta
is: CHEBI:35222
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: compartment meta
name: x
type: Species

v1 meta
modifier: 603090
product: 603078
kinetic law: 603102
is: GO:0006508
is: GO:0009058
fast: false
reactant: 603066
reversible: true
type: Reaction
name: v1

sigb meta
is: IPR006288
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: compartment meta
name: sigb
type: Species

v3 meta
product: 603162
reactant: 603150
is: GO:0006508
reversible: true
kinetic law: 603174
name: v3
type: Reaction
fast: false
is: GO:0009058

compartment meta
is: GO:0005623
constant: true
size: 1.0
spatial dimensions: 3.0
name: compartment
type: Compartment

lacz meta
is: GO:0015925
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: compartment meta
name: lacz
type: Species

v2 meta
kinetic law: 603138
type: Reaction
reversible: true
is: GO:0006508
name: v2
reactant: 603114
fast: false
product: 603126
is: GO:0009058

603066
stoichiometry: 1.0
species: IPTG meta
type: SpeciesReference

kzd meta
is: GO:0006508
constant: true
value: 0.052
name: kzd
type: Parameter

IPTG meta
is: CHEBI:61448
constant: true
boundary condition: true
has only substance units: false
initial concentration: 100.0
initial amount: NaN
in compartment: compartment meta
name: IPTG
type: Species

kxd meta
is: GO:0006508
constant: true
value: 1.2E-13
name: kxd
type: Parameter

BIOMD0000000460
modified:
  W3 CDTF: Mon Jun 10 14:46:42 BST 2013
notes: Liebal2012 - B.subtilis sigB proteolysis model An important transcription factor of B.subsilis is sigma B . Liebal et al. (2012) have performed experiments in B.subtilis wild type and mutant straits to test and validate a mathematical model of the dynamics of sigma B activity. The following three models were constructed and their ability to fit the experimental data were tested. 1) Transcription inhibition model (MODEL1212180000), 2) sigma B proteolysis model (MODEL1302080000) and 3) Post-transcriptional instability model (MODEL1302080001). This model corresponds to the sigma B proteolysis model (MODEL1302080000). This model is described in the article: Proteolysis of beta-galactosidase following SigmaB activation in Bacillus subtilis. Liebal UW, Sappa PK, Millat T, Steil L, Homuth G, Völker U, Wolkenhauer O. 2012 Jun;8(6):1806-14. Abstract: In Bacillus subtilis the σ(B) mediated general stress response provides protection against various environmental and energy related stress conditions. To better understand the general stress response, we need to explore the mechanism by which the components interact. Here, we performed experiments in B. subtilis wild type and mutant strains to test and validate a mathematical model of the dynamics of σ(B) activity. In the mutant strain BSA115, σ(B) transcription is inducible by the addition of IPTG and negative control of σ(B) activity by the anti-sigma factor RsbW is absent. In contrast to our expectations of a continuous β-galactosidase activity from a ctc::lacZ fusion, we observed a transient activity in the mutant. To explain this experimental finding, we constructed mathematical models reflecting different hypotheses regarding the regulation of σ(B) and β-galactosidase dynamics. Only the model assuming instability of either ctc::lacZ mRNA or β-galactosidase protein is able to reproduce the experiments in silico. Subsequent Northern blot experiments revealed stable high-level ctc::lacZ mRNA concentrations after the induction…
occurs in: http://identifiers.org/taxonomy/1423
reaction: v1 meta
species: x meta
is described by: http://identifiers.org/pubmed/22511268
area units: area
curated: true
species: IPTG meta
reaction: v2 meta
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Vijayalakshmi
    family: Chelliah
creator:
  ORG:
    orgname: The University of Rostock
  n:
    given: Ulf
    family: Liebal
parameter: kbs meta
parameter: kzs meta
compartment: compartment meta
species: lacz meta
name: Liebal2012 - B.subtilis sigB proteolysis model
reaction: v3 meta
parameter: kbd meta
parameter: kxd meta
type: SBMLModel
parameter: kxs meta
length unit: length
is: MODEL1302080000
species: sigb meta
parameter: kbx meta
created:
  W3 CDTF: Thu Jun 06 20:30:32 BST 2013
parameter: kzd meta
has property: GO:0030162

603150
stoichiometry: 1.0
species: sigb meta
type: SpeciesReference

kbx meta
is: CHEBI:35222
constant: true
value: 8.4E-5
name: kbx
type: Parameter

kzs meta
is: GO:0009058
constant: true
value: 1.7E-6
name: kzs
type: Parameter

kbs meta
is: GO:0009058
constant: true
value: 100.0
name: kbs
type: Parameter

kxs meta
is: GO:0009058
constant: true
value: 2.0E-6
name: kxs
type: Parameter