032364
constant: true
value: 14.0
type: Parameter

378671
stoichiometry: 1.0
species: 032290
type: SpeciesReference

032331
constant: true
value: 0.15
type: Parameter

032359
constant: true
value: 4.9
type: Parameter

378959
stoichiometry: 1.0
species: 032293
type: SpeciesReference

032312
is: SBO:0000202
is version of: GO:0004489
modifier: 378611
reversible: false
kinetic law: 378623
product: 378599
is version of: http://identifiers.org/ec-code/1.5.1.20
is version of: R01224
is homolog to: REACT_11102
reactant: 378587
fast: false
type: Reaction

032370
constant: true
value: 800000.0
type: Parameter

032288
initial concentration: 5.16
boundary condition: false
initial amount: NaN
is: SBO:0000247
type: Species
constant: false
is: CHEBI:15641
is: C00440
has only substance units: false
in compartment: 032287

378599
stoichiometry: 1.0
species: 032288
type: SpeciesReference

378815
stoichiometry: 1.0
species: 032293
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032305
in compartment: 032287
constant: false
initial concentration: 900.0
is version of: C00058
has only substance units: false
boundary condition: true
is: SBO:0000247
type: Species
is version of: CHEBI:30751
initial amount: NaN

032297
initial concentration: 468.0
constant: false
boundary condition: true
has only substance units: false
is: SBO:0000247
initial amount: NaN
type: Species
is version of: CHEBI:17822
in compartment: 032287
is version of: C00716

032350
constant: true
value: 3.0
type: Parameter

032365
constant: true
value: 50.0
type: Parameter

378875
stoichiometry: 1.0
species: 032290
type: SpeciesReference

378779
stoichiometry: 1.0
species: 032290
type: SpeciesReference

032385
constant: true
value: 594000.0
type: Parameter

032313
fast: false
is homolog to: REACT_11170
is version of: GO:0016155
is version of: http://identifiers.org/ec-code/1.5.1.6
kinetic law: 378659
reactant: 378635
reversible: false
type: Reaction
is: SBO:0000402
product: 378647
is version of: R00941

032358
constant: true
value: 520.0
type: Parameter

032287
is version of: GO:0005623
is: SBO:0000290
constant: true
size: 1.0
spatial dimensions: 3.0
type: Compartment

032379
constant: true
value: 50.0
type: Parameter

032290
is: CHEBI:15635
initial amount: NaN
in compartment: 032287
has only substance units: false
type: Species
is: C00101
is: SBO:0000247
boundary condition: false
initial concentration: 6.73
constant: false

032371
constant: true
value: 250.0
type: Parameter

032344
constant: true
value: 14000.0
type: Parameter

032296
initial amount: NaN
is: CHEBI:15637
is: C00234
has only substance units: false
constant: false
initial concentration: 5.99
boundary condition: false
is: SBO:0000247
in compartment: 032287
type: Species

032347
constant: true
value: 2000.0
type: Parameter

032324
type: Reaction
reactant: 378947
modifier: 378983
reversible: false
is: SBO:0000402
is version of: R00945
fast: false
modifier: 378971
is homolog to: REACT_11159
is version of: GO:0004372
kinetic law: 378995
is version of: http://identifiers.org/ec-code/2.1.2.1
product: 378959

032386
constant: true
value: 10.0
type: Parameter

032376
constant: true
value: 40000.0
type: Parameter

378731
stoichiometry: 1.0
species: 032290
type: SpeciesReference

032310
is homolog to: REACT 6739
reversible: false
is: SBO:0000402
reactant: 378539
fast: false
product: 378551
kinetic law: 378575
is version of: R00946
modifier: 378563
is version of: GO:0008705
type: Reaction
is version of: http://identifiers.org/ec-code/2.1.1.13

378647
stoichiometry: 1.0
species: 032290
type: SpeciesReference

378719
stoichiometry: 1.0
species: 032296
type: SpeciesReference

032367
constant: true
value: 4.0
type: Parameter

032325
fast: false
reactant: 379007
kinetic law: 379031
is: SBO:0000201
product: 379019
reversible: false
is homolog to: REACT_11187
is version of: GO:0004488
type: Reaction
is version of: http://identifiers.org/ec-code/1.5.1.5
is version of: R01220

032346
constant: true
value: 20.0
type: Parameter

378863
stoichiometry: 1.0
species: 032291
type: SpeciesReference

032315
fast: false
is homolog to: REACT_11109
is version of: GO:0004329
is version of: http://identifiers.org/ec-code/6.3.4.3
product: 378683
type: Reaction
kinetic law: 378707
is: SBO:0000402
modifier: 378695
reversible: false
reactant: 378671
is version of: R00943

032377
constant: true
value: 600.0
type: Parameter

032356
constant: true
value: 16200.0
type: Parameter

032306
initial amount: NaN
is: SBO:0000247
in compartment: 032287
is: CHEBI:16474
is: C00005
type: Species
constant: false
initial concentration: 50.0
has only substance units: false
boundary condition: true

032309
type: Reaction
kinetic law: 378527
is: SBO:0000210
product: 378503
is version of: GO:0046653
fast: false
modifier: 378515
reversible: false
reactant: 378491

032316
is version of: http://identifiers.org/ec-code/2.1.2.3
is version of: GO:0004643
fast: false
kinetic law: 378755
modifier: 378743
is homolog to: REACT 812
is: SBO:0000402
type: Reaction
reactant: 378719
product: 378731
is version of: R04560
reversible: false

379019
stoichiometry: 1.0
species: 032294
type: SpeciesReference

032380
constant: true
value: 25000.0
type: Parameter

378635
stoichiometry: 1.0
species: 032296
type: SpeciesReference

032321
reactant: 378863
type: Reaction
is homolog to: REACT_11170
product: 378875
is version of: R00939
reversible: false
fast: false
is version of: http://identifiers.org/ec-code/1.5.1.3
is version of: GO:0004146
modifier: 378887
kinetic law: 378899
is: SBO:0000202

032341
constant: true
value: 16.0
type: Parameter

032368
constant: true
value: 0.5
type: Parameter

032293
type: Species
initial concentration: 0.94
boundary condition: false
constant: false
has only substance units: false
is: C00143
in compartment: 032287
is: SBO:0000247
initial amount: NaN
is: CHEBI:1989

032374
constant: true
value: 100.0
type: Parameter

032355
constant: true
value: 5.9
type: Parameter

032335
constant: true
value: 25.0
type: Parameter

032308
is: C05330
in compartment: 032287
initial amount: NaN
initial concentration: 1.0
is: CHEBI:17230
type: Species
has only substance units: false
boundary condition: true
constant: false
is: SBO:0000247

032334
constant: true
value: 500.0
type: Parameter

378503
stoichiometry: 1.0
species: 032293
type: SpeciesReference

032300
type: Species
has only substance units: false
boundary condition: true
is: C00365
constant: false
initial amount: NaN
in compartment: 032287
is: SBO:0000247
is: CHEBI:17622
initial concentration: 20.0

032340
constant: true
value: 6000.0
type: Parameter

032361
constant: true
value: 50.0
type: Parameter

032294
constant: false
is: SBO:0000247
has only substance units: false
is: CHEBI:15638
initial amount: NaN
type: Species
initial concentration: 1.153
is: C00445
boundary condition: false
in compartment: 032287

378923
stoichiometry: 1.0
species: 032296
type: SpeciesReference

032337
constant: true
value: 0.1
type: Parameter

378587
stoichiometry: 1.0
species: 032293
type: SpeciesReference

378827
stoichiometry: 1.0
species: 032291
type: SpeciesReference

032382
constant: true
value: 200000.0
type: Parameter

032318
is homolog to: REACT 1509
is version of: GO:0004644
is version of: http://identifiers.org/ec-code/2.1.2.2
reactant: 378767
is version of: R04325
is: SBO:0000402
product: 378779
type: Reaction
reversible: false
fast: false
modifier: 378791
kinetic law: 378803

378947
stoichiometry: 1.0
species: 032290
type: SpeciesReference

379007
stoichiometry: 1.0
species: 032293
type: SpeciesReference

378539
stoichiometry: 1.0
species: 032288
type: SpeciesReference

378683
stoichiometry: 1.0
species: 032296
type: SpeciesReference

032343
constant: true
value: 50.0
type: Parameter

032303
initial amount: NaN
type: Species
constant: false
initial concentration: 2.1
has only substance units: false
boundary condition: true
is version of: C04677
is: SBO:0000247
in compartment: 032287
is version of: CHEBI:18406

032291
type: Species
boundary condition: false
has only substance units: false
initial concentration: 0.027
in compartment: 032287
is: CHEBI:15633
constant: false
is: C00415
is: SBO:0000247
initial amount: NaN

032338
constant: true
value: 1.0
type: Parameter

032362
constant: true
value: 6.3
type: Parameter

032353
constant: true
value: 100.0
type: Parameter

032383
constant: true
value: 2.0
type: Parameter

032332
constant: true
value: 12.0
type: Parameter

032319
is version of: GO:0004799
product: 378827
fast: false
modifier: 378839
is: SBO:0000402
type: Reaction
reversible: false
is homolog to: REACT 1679
is version of: R02101
kinetic law: 378851
reactant: 378815
is version of: http://identifiers.org/ec-code/2.1.1.45

032299
boundary condition: true
has only substance units: false
initial concentration: 1850.0
constant: false
initial amount: NaN
is: CHEBI:15428
in compartment: 032287
is: C00037
is: SBO:0000247
type: Species

378911
stoichiometry: 1.0
species: 032294
type: SpeciesReference

032322
type: Reaction
fast: false
is version of: R01655
reactant: 378911
is homolog to: REACT_11074
reversible: false
product: 378923
kinetic law: 378935
is version of: http://identifiers.org/ec-code/3.5.4.9
is version of: GO:0004477
is: SBO:0000376

032302
initial concentration: 10.0
is: C04376
initial amount: NaN
type: Species
in compartment: 032287
constant: false
is: CHEBI:18272
is version of: CHEBI:24367
has only substance units: false
boundary condition: true
is: SBO:0000247

378767
stoichiometry: 1.0
species: 032296
type: SpeciesReference

032373
constant: true
value: 20000.0
type: Parameter

032349
constant: true
value: 43.0
type: Parameter

BIOMD0000000213
parameter: 032340
parameter: 032343
curated: true
parameter: 032356
parameter: 032383
species: 032305
parameter: 032362
area units: metaid_0000005
species: 032291
species: 032306
is described by: http://identifiers.org/pubmed/15496403
is: MODEL4336555445
species: 032299
parameter: 032386
reaction: 032312
length unit: length
parameter: 032335
parameter: 032379
occurs in: http://identifiers.org/taxonomy/40674
parameter: 032373
parameter: 032380
reaction: 032322
parameter: 032377
parameter: 032359
reaction: 032310
reaction: 032325
parameter: 032350
parameter: 032341
parameter: 032338
notes: This is an SBML version of the folate cycle model model from: A mathematical model of the folate cycle: new insights into folate homeostasis. Nijhout HF, Reed MC, Budu P, Ulrich CM J. Biol. Chem.,2004, 279 (53),55008-16 pubmedID: 15496403 Abstract: A mathematical model is developed for the folate cycle based on standard biochemical kinetics. We use the model to provide new insights into several different mechanisms of folate homeostasis. The model reproduces the known pool sizes of folate substrates and the fluxes through each of the loops of the folate cycle and has the qualitative behavior observed in a variety of experimental studies. Vitamin B(12) deficiency, modeled as a reduction in the V(max) of the methionine synthase reaction, results in a secondary folate deficiency via the accumulation of folate as 5-methyltetrahydrofolate (the "methyl trap"). One form of homeostasis is revealed by the fact that a 100-fold up-regulation of thymidylate synthase and dihydrofolate reductase (known to occur at the G(1)/S transition) dramatically increases pyrimidine production without affecting the other reactions of the folate cycle. The model also predicts that an almost total inhibition of dihydrofolate reductase is required to significantly inhibit the thymidylate synthase reaction, consistent with experimental and clinical studies on the effects of methotrexate. Sensitivity to variation in enzymatic parameters tends to be local in the cycle and inversely proportional to the number of reactions that interconvert two folate substrates. Another form of homeostasis is a consequence of the nonenzymatic binding of folate substrates to folate enzymes. Without folate binding, the velocities of the reactions decrease approximately linearly as total folate is decreased. In the presence of folate binding and allosteric inhibition, the velocities show a remarkable constancy as total folate is decreased. This model was encoded by Michal Galdzicki from a MatLab file send to him by Pro…
species: 032288
parameter: 032364
parameter: 032346
parameter: 032367
is version of: GO:0046655
reaction: 032315
parameter: 032344
substance units: metaid_1000003
parameter: 032370
compartment: 032287
reaction: 032318
time units: metaid_0000067
reaction: 032309
species: 032290
species: 032303
creator:
  ORG:
    orgname: University of Washington
  n:
    given: Michal
    family: Galdzicki
name: Nijhout2004_Folate_Cycle
parameter: 032331
parameter: 032349
parameter: 032371
volume units: metaid_0000069
species: 032297
parameter: 032352
parameter: 032355
parameter: 032334
parameter: 032361
species: 032300
parameter: 032374
parameter: 032365
parameter: 032347
reaction: 032313
species: 032294
parameter: 032382
parameter: 032385
species: 032293
reaction: 032316
reaction: 032319
species: 032296
reaction: 032321
species: 032302
modified:
  W3 CDTF: Thu Jul 05 17:49:49 BST 2012
type: SBMLModel
parameter: 032353
parameter: 032337
parameter: 032332
parameter: 032376
parameter: 032358
species: 032308
reaction: 032324
parameter: 032368

378491
stoichiometry: 1.0
species: 032290
type: SpeciesReference

032352
constant: true
value: 45000.0
type: Parameter

378551
stoichiometry: 1.0
species: 032290
type: SpeciesReference

W3 CDTF: Wed Mar 25 13:33:53 GMT 2009