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value: 25200.0
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constant: true
value: 7.25E-7
type: Parameter

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value: 0.65
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exponent: 1.0
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multipler: 1.0
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type: SBMLUnit

metaid_0000045
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reversible: false
name: allolactose_controlled_mRNA_synthesis
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metaid_0000036
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boundary condition: false
has only substance units: false
initial concentration: 0.038
initial amount: NaN
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name: allolactose
type: Species

metaid_0000056
is version of: GO:0044257
fast: false
reversible: false
name: permease_degradation
type: Reaction

BIOMD0000000065
curated: true
reaction: metaid_0000045
species: metaid_0000042
parameter: metaid_0000022
units def: metaid_0000060
occurs in: http://identifiers.org/taxonomy/562
reaction: metaid_0000058
reaction: metaid_0000044
reaction: metaid_0000055
parameter: metaid_0000012
reaction: metaid_0000051
reaction: metaid_0000043
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name: Yildirim2003_Lac_Operon
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parameter: metaid_0000027
parameter: metaid_0000011
area units: area
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units def: metaid_0000008
creator:
  ORG:
    orgname: Penn Engineering
  n:
    given: Adam
    family: Halasz
modified:
  W3 CDTF: Thu Jun 06 12:46:14 BST 2013
notes: This a model from the article: Feedback regulation in the lactose operon: a mathematical modeling study and comparison with experimental data. Yildirim N, Mackey MC Biophys. J. 2003 12719218 , Abstract: A mathematical model for the regulation of induction in the lac operon in Escherichia coli is presented. This model takes into account the dynamics of the permease facilitating the internalization of external lactose; internal lactose; beta-galactosidase, which is involved in the conversion of lactose to allolactose, glucose and galactose; the allolactose interactions with the lac repressor; and mRNA. The final model consists of five nonlinear differential delay equations with delays due to the transcription and translation process. We have paid particular attention to the estimation of the parameters in the model. We have tested our model against two sets of beta-galactosidase activity versus time data, as well as a set of data on beta-galactosidase activity during periodic phosphate feeding. In all three cases we find excellent agreement between the data and the model predictions. Analytical and numerical studies also indicate that for physiologically realistic values of the external lactose and the bacterial growth rate, a regime exists where there may be bistable steady-state behavior, and that this corresponds to a cusp bifurcation in the model dynamics. The model reproduces the time profile of beta-galactosidase activity as shown in Fig 3 of the paper. The delay functions for transcription (M) and translation (B and P) have been implemented by introducing intermediates ( I1, I2 and I3) in the reaction scheme which then give their respective products (I1-> M, I2 ->B and I3 ->P) after an appropriate length of time. The steady state values, attained upon simulation of model equations, for Allolactose (A), mRNA (M), beta-galactosidase (B), Lactose (L), and Permease (P) match with those predicted by the paper. The model was successfully tested on Jarnac, MathSBML an…
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Vijayalakshmi
    family: Chelliah
parameter: metaid_0000019
reaction: metaid_0000054
parameter: metaid_0000015
reaction: metaid_0000050
is: MODEL6624248569
parameter: metaid_0000029
volume units: metaid_0000323
parameter: metaid_0000025
created:
  W3 CDTF: Wed Jun 21 15:47:26 BST 2006
parameter: metaid_0000030
length unit: length
parameter: metaid_0000024
parameter: metaid_0000020
species: metaid_0000035
parameter: metaid_0000010
reaction: metaid_0000053
species: metaid_0000041
is described by: http://identifiers.org/pubmed/12719218
type: SBMLModel
species: metaid_0000038
time units: metaid_0000008
reaction: metaid_0000047
parameter: metaid_0000013
parameter: metaid_0000028
parameter: metaid_0000018
reaction: metaid_0000046
is version of: GO:0045990
creator:
  ORG:
    orgname: California Institute of Technology
  n:
    given: Harish
    family: Dharuri
parameter: metaid_0000014
parameter: metaid_0000017
reaction: metaid_0000052
species: metaid_0000036
parameter: metaid_0000009
species: metaid_0000039
reaction: metaid_0000057
parameter: metaid_0000023

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constant: true
value: 0.0226
type: Parameter

metaid_0000015
constant: true
value: 9.97E-4
type: Parameter

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is version of: GO:0009299
fast: false
reversible: false
name: allolactose_controlled_partial_mRNA_synthesis
type: Reaction

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stoichiometry: 1.0
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constant: true
value: 10.0
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is: CHEBI:17716
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name: lactose_internal
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is: C00243
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initial concentration: 0.372

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is version of: GO:0006412
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reversible: false
name: permease_synthesis
type: Reaction

metaid_0000047
is version of: GO:0044257
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reversible: false
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initial concentration: 6.26E-4
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name: mRNA
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metaid_0000020
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value: 1.95
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metaid_0000055
is: GO:0015155
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reversible: false
name: Lactose_transport_in
type: Reaction

metaid_0000041
constant: false
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type: Parameter

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is: GO:0004565
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value: 0.97
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stoichiometry: 1.0
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type: Species
name: External_Lactose
is: C00243
boundary condition: true
has only substance units: false
is: CHEBI:17716
initial amount: NaN
constant: true

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value: 0.411
type: Parameter

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