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name: Homoserine

638792
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value: 109.0
type: LocalParameter

BIOMD0000000212
reaction: metaid_0000044
reaction: metaid_0000057
created:
  W3 CDTF: Thu May 28 13:57:42 BST 2009
reaction: metaid_0000047
rule: 979148
species: metaid_0000019
units def: metaid_1000003
species: metaid_0000038
species: metaid_0000028
occurs in: http://identifiers.org/taxonomy/3702
species: metaid_0000034
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units def: metaid_0000004
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units def: metaid_0000007
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units def: metaid_0000006
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is: MODEL3336584391
substance units: metaid_1000003
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rule: 979147
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species: metaid_0000040
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species: metaid_0000014
parameter: 638855
units def: metaid_0000009
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units def: metaid_0000008
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species: metaid_0000036
is part of: ath00260
type: SBMLModel
reaction: metaid_0000043
reaction: metaid_0000046
reaction: metaid_0000059
is described by: http://identifiers.org/pubmed/19455135
curated: true
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species: metaid_0000025
species: metaid_0000013
area units: metaid_0000005
species: metaid_0000021
parameter: 638853
reaction: metaid_0000051
name: Curien2009_Aspartate_Metabolism
units def: metaid_0000003
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is version of: GO:0006531
species: metaid_0000039
length unit: length
species: metaid_0000035
notes: This a model described in the article: Understanding the regulation of aspartate metabolism using a model based on measured kinetic parameters. Curien G, Bastien O, Robert-Genthon M, Cornish-Bowden A, Cárdenas ML, Dumas R. Mol Syst Biol. 2009;5:271. Epub 2009 May 19. PMID: 19455135 , doi: 10.1038/msb.2009.29 Abstract: The aspartate-derived amino-acid pathway from plants is well suited for analysing the function of the allosteric network of interactions in branched pathways. For this purpose, a detailed kinetic model of the system in the plant model Arabidopsis was constructed on the basis of in vitro kinetic measurements. The data, assembled into a mathematical model, reproduce in vivo measurements and also provide non-intuitive predictions. A crucial result is the identification of allosteric interactions whose function is not to couple demand and supply but to maintain a high independence between fluxes in competing pathways. In addition, the model shows that enzyme isoforms are not functionally redundant, because they contribute unequally to the flux and its regulation. Another result is the identification of the threonine concentration as the most sensitive variable in the system, suggesting a regulatory role for threonine at a higher level of integration. The limiting rates for the tRNA synthetase reactions, V_Lys_RS, V_Thr_RS and V_Ile_RS, are all assigned a joined value, Vmax_AA_RS, to facilitate reproduction of the results in the publication. To alter these rates seperately these assignments have to be changed or removed. This model originates from BioModels Database: A Database of Annotated Published Models. It is copyright (c) 2005-2009 The BioModels Team. For more information see the terms of use . To cite BioModels Database, please use Le Novère N., Bornstein B., Broicher A., Courtot M., Donizelli M., Dharuri H., Li L., Sauro H., Schilstra M., Shapiro B., Snoep J.L., Hucka M. (2006) BioModels Database: A Free, Centralized Database of Curated, Published, …
units def: metaid_0000005

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694206
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694808
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name: homoserine dehydrogenase react. (AKII-HSDHII)
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value: 0.86
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metaid_0000056
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is: http://identifiers.org/ec-code/6.1.1.3
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kinetic law: 694699
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is: SBO:0000320
units: metaid_0000005
value: 1.0
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metaid_0000018
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is: O81852
has only substance units: false
in compartment: metaid_0000010
type: Species
boundary condition: true
initial concentration: 0.63
initial amount: NaN
name: AKII-HSDHII
is: SBO:0000252

metaid_0000042
modifier: 693867
is version of: GO:0004072
modifier: 693879
reactant: 693831
product: 693843
fast: false
modifier: 693855
reversible: true
is: R00480
is: SBO:0000402
name: Aspartate kinase 1 react.
kinetic law: 693891
is: http://identifiers.org/ec-code/2.7.2.4
type: Reaction

979150
constant: true
units: metaid_0000006
value: 0.43
name: Vmax_AA_RS
type: Parameter

638841
units: dimensionless
value: 460.0
type: LocalParameter

638777
is: SBO:0000190
units: dimensionless
value: 2.0
type: LocalParameter

694579
stoichiometry: 1.0
species: metaid_0000033
type: SpeciesReference

694651
stoichiometry: 1.0
species: metaid_0000035
type: SpeciesReference

metaid_0000055
product: 694651
type: Reaction
is: http://identifiers.org/ec-code/6.1.1.6
reactant: 694639
fast: false
is: SBO:0000176
reversible: false
is version of: GO:0006430
name: Lys aminoacyl tRNA synthetase react.
is: R03658
is version of: GO:0004824
kinetic law: 694663

638800
is: SBO:0000190
units: dimensionless
value: 2.0
type: LocalParameter

metaid_0000041
initial amount: NaN
has only substance units: false
type: Species
boundary condition: true
is: CHEBI:15428
initial concentration: 0.0
in compartment: metaid_0000010
is: C00037
constant: false
name: Glycine
is: SBO:0000247

694098
stoichiometry: 1.0
species: metaid_0000021
type: SpeciesReference

metaid_0000017
is: Q9SA18
is: SBO:0000252
has only substance units: false
constant: false
in compartment: metaid_0000010
name: AKI-HSDHI
initial amount: NaN
boundary condition: true
initial concentration: 0.63
type: Species

694254
stoichiometry: 1.0
species: metaid_0000021
type: SpeciesReference

638852
units: dimensionless
value: 3.0
type: LocalParameter

metaid_1000003
unit: 693651
name: micromole
type: SBMLUnitsDef

638827
units: metaid_0000005
value: 1000.0
type: LocalParameter

693759
exponent: -2.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

metaid_0000054
has version: http://identifiers.org/ec-code/2.6.1.42
fast: false
kinetic law: 694627
has version: http://identifiers.org/ec-code/2.2.1.6
modifier: 694615
is: SBO:0000205
is version of: GO:0009097
reversible: false
type: Reaction
reactant: 694567
modifier: 694603
has version: http://identifiers.org/ec-code/4.3.1.19
product: 694579
has version: http://identifiers.org/ec-code/4.2.1.9
has version: http://identifiers.org/ec-code/1.1.1.86
name: Threonine deaminase react.
modifier: 694591

metaid_0000044
is version of: GO:0004072
kinetic law: 694013
modifier: 694001
is: http://identifiers.org/ec-code/2.7.2.4
reversible: true
modifier: 693989
product: 693976
is: SBO:0000402
reactant: 693964
fast: false
type: Reaction
name: aspartate kinase react. (AKI-HSDHI)
is: R00480

638853
constant: false
units: metaid_0000006
value: 0.43
type: Parameter

638826
units: dimensionless
value: 2.0
type: LocalParameter

638769
is: SBO:0000320
units: metaid_0000003
value: 5.65
type: LocalParameter

694086
stoichiometry: 1.0
species: metaid_0000015
type: SpeciesReference

metaid_0000053
kinetic law: 694555
modifier: 694543
is: SBO:0000402
type: Reaction
modifier: 694519
name: Cystathionine gamma synthase react.
is version of: R03260
reactant: 694495
is version of: http://identifiers.org/ec-code/2.5.1.48
product: 694507
modifier: 694531
reversible: false
fast: false

694748
stoichiometry: 1.0
species: metaid_0000013
type: SpeciesReference

638779
is: SBO:0000321
units: metaid_0000008
value: 0.86
type: LocalParameter

638789
is: SBO:0000190
units: dimensionless
value: 2.0
type: LocalParameter

694567
stoichiometry: 1.0
species: metaid_0000019
type: SpeciesReference

metaid_0000019
is: SBO:0000247
in compartment: metaid_0000010
has only substance units: false
type: Species
initial amount: NaN
name: Threonine
is: CHEBI:16857
is: C00188
initial concentration: 0.0
constant: false
boundary condition: false

metaid_0000043
type: Reaction
modifier: 693940
kinetic law: 693952
is: R00480
modifier: 693928
fast: false
product: 693916
reversible: true
is version of: GO:0004072
is: SBO:0000402
reactant: 693904
name: Aspartate kinase 2 react.
is: http://identifiers.org/ec-code/2.7.2.4

ORG:
  orgname: EMBL-EBI
n:
  given: Lukas
  family: Endler

ORG:
  orgname: Centre National de la Recherchce Scientifique (CNRS)
n:
  given: Gilles
  family: Curien

W3 CDTF: Mon Dec 13 09:51:40 GMT 2010