471293
unit: 471305
name: s
type: SBMLUnitsDef

471546
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

387313
constant: true
value: 0.0
name: kr_ldh
type: Parameter

387322
constant: false
value: NaN
name: V_ATPase
type: Parameter

387277
constant: true
value: 2.5
name: Vmax_hk
type: Parameter

387303
constant: true
value: 0.4
name: Km_GAP_pk
type: Parameter

387279
constant: true
value: 0.5
name: Km_ATP_hk
type: Parameter

471353
unit: 471377
unit: 471365
name: per_mM
type: SBMLUnitsDef

387298
constant: false
value: NaN
name: V_pk
type: Parameter

387365
constant: true
value: 0.005
name: Kamp_pfk2
type: Parameter

387342
constant: true
value: 1.0
name: KI_ATP
type: Parameter

471642
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

471691
exponent: -2.0
scale: -2
multipler: 1.0
kind: METRE
type: SBMLUnit

471729
unit: 471742
name: time
type: SBMLUnitsDef

471450
exponent: -1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

387312
constant: true
value: 0.0
name: kf_ldh
type: Parameter

471630
unit: 471654
unit: 471642
name: L_per_millimole
type: SBMLUnitsDef

471414
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

471618
exponent: -1.0
scale: 0
multipler: 1.0
kind: MOLE
type: SBMLUnit

387333
constant: false
value: NaN
name: ADP
type: Parameter

387283
constant: true
value: 3.85
name: Vmax_pfk
type: Parameter

387297
constant: true
value: 1.0E-4
name: Km_F26P_pfk2
type: Parameter

387270
constant: false
value: 0.1
name: PYR
type: Parameter

387353
constant: true
value: 50.0
name: to
type: Parameter

471570
unit: 471582
name: per_cm
type: SBMLUnitsDef

387343
constant: false
value: NaN
name: AMP_act
type: Parameter

471498
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

471365
exponent: -1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

387309
constant: true
value: 0.5
name: Km_PYR_op
type: Parameter

387315
constant: false
value: NaN
name: V_ck
type: Parameter

387348
constant: false
value: NaN
name: v_stim
type: Parameter

387301
constant: true
value: 0.005
name: Km_ADP_pk
type: Parameter

471534
exponent: -1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

387334
constant: false
value: NaN
name: u
type: Parameter

471703
unit: 471716
name: mV
type: SBMLUnitsDef

387340
constant: true
value: 0.4
name: nATP
type: Parameter

387354
constant: true
value: 200.0
name: tend
type: Parameter

387349
constant: false
value: NaN
name: unitpulseSB
type: Parameter

471654
exponent: -1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

387316
constant: true
value: 3.0
name: kf_ck
type: Parameter

387286
constant: true
value: 0.18
name: Km_F6P_pfk
type: Parameter

387266
constant: false
value: 0.2
name: F6P
type: Parameter

471402
exponent: 1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

387321
constant: true
value: 20.0
name: PCrtot
type: Parameter

W3 CDTF: Fri Jun 25 14:19:49 BST 2010

387300
constant: true
value: 5.0
name: Vmax_pk
type: Parameter

387276
constant: false
value: NaN
name: V_hk
type: Parameter

471582
exponent: -1.0
scale: -2
multipler: 1.0
kind: METRE
type: SBMLUnit

471486
unit: 471498
name: per_s
type: SBMLUnitsDef

387366
constant: true
value: 2.0
name: nh_amp
type: Parameter

387285
constant: true
value: 0.05
name: Km_ATP_pfk
type: Parameter

387222
constant: true
units: litre
size: 1.0
spatial dimensions: 3.0
type: Compartment

387295
constant: true
value: 0.01
name: Km_F6P_pfk2
type: Parameter

387327
constant: false
value: NaN
name: V_lac
type: Parameter

471742
exponent: 1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

387294
constant: true
value: 0.05
name: Km_ATP_pfk2
type: Parameter

ORG:
  orgname: University of Auckland
n:
  given: Catherine
  family: Lloyd

471474
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

387351
constant: true
value: 1.0
name: stim
type: Parameter

387273
constant: false
value: 2.402
name: ATP
type: Parameter

387280
constant: true
value: 0.068
name: KI_F6P
type: Parameter

471606
exponent: 1.0
scale: 0
multipler: 1.0
kind: COULOMB
type: SBMLUnit

W3 CDTF: Fri Jun 25 14:19:49 BST 2010

387336
constant: false
value: NaN
name: dAMP_dATP
type: Parameter

387288
constant: true
value: 0.01
name: Km_F26P_pfk
type: Parameter

387346
constant: true
value: 0.05
name: Ka_AMP
type: Parameter

387318
constant: true
value: 1.26
name: kr_ck
type: Parameter

387356
constant: true
value: 0.5
name: v1_n
type: Parameter

471377
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

387328
constant: true
value: 0.355
name: Vlac_0
type: Parameter

387360
constant: true
value: 2.51
name: ANP
type: Parameter

387274
constant: false
value: 18.14
name: PCr
type: Parameter

471666
unit: 471691
unit: 471678
name: mS_per_cm2
type: SBMLUnitsDef

471594
unit: 471618
unit: 471606
name: C_per_mole
type: SBMLUnitsDef

387337
constant: false
value: NaN
name: AMP
type: Parameter

471522
exponent: 1.0
scale: -2
multipler: 1.0
kind: METRE
type: SBMLUnit

471329
exponent: 1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

387307
constant: true
value: 0.005
name: Km_ADP_op
type: Parameter

387357
constant: true
value: 0.0
name: v2_n
type: Parameter

471438
unit: 471474
unit: 471462
unit: 471450
name: per_mM_s
type: SBMLUnitsDef

471462
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

387330
constant: true
value: 0.71
name: K_LAC_eff
type: Parameter

471305
exponent: 1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

387292
constant: true
value: 1.036E-4
name: Vmaxr_pfk2
type: Parameter

387271
constant: false
value: 0.5
name: LAC
type: Parameter

387339
constant: false
value: NaN
name: ATP_inh
type: Parameter

387282
constant: false
value: NaN
name: V_pfk
type: Parameter

387363
constant: false
value: NaN
name: AMP_pfk2
type: Parameter

387268
constant: false
value: 0.0405
name: GAP
type: Parameter

387324
constant: true
value: 0.9355
name: Vmax_ATPase
type: Parameter

387306
constant: true
value: 1.0
name: Vmax_op
type: Parameter

471390
unit: 471426
unit: 471414
unit: 471402
name: mM_per_s
type: SBMLUnitsDef

471558
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

387304
constant: false
value: NaN
name: V_op
type: Parameter

387362
constant: true
value: 0.92
name: Q_adk
type: Parameter

387331
constant: true
value: 0.641
name: K_LAC
type: Parameter

471678
exponent: 1.0
scale: -3
multipler: 1.0
kind: SIEMENS
type: SBMLUnit

387291
constant: true
value: 2.0E-4
name: Vmaxf_pfk2
type: Parameter

471716
exponent: 1.0
scale: -3
multipler: 1.0
kind: VOLT
type: SBMLUnit

MODEL1006230059
parameter: 387304
compartment: 387222
parameter: 387324
rule: 387226
rule: 387258
rule: 387256
parameter: 387356
parameter: 387336
parameter: 387273
parameter: 387289
rule: 387246
rule: 387252
rule: 387239
rule: 387244
units def: 471438
units def: 471570
rule: 387243
parameter: 387359
parameter: 387322
parameter: 387279
parameter: 387342
notes: This a model from the article: The control systems structures of energy metabolism. Cloutier M, Wellstead P. J R Soc Interface 2010 Apr 6;7(45):651-65 19828503 , Abstract: The biochemical regulation of energy metabolism (EM) allows cells to modulate their energetic output depending on available substrates and requirements. To this end, numerous biomolecular mechanisms exist that allow the sensing of the energetic state and corresponding adjustment of enzymatic reaction rates. This regulation is known to induce dynamic systems properties such as oscillations or perfect adaptation. Although the various mechanisms of energy regulation have been studied in detail from many angles at the experimental and theoretical levels, no framework is available for the systematic analysis of EM from a control systems perspective. In this study, we have used principles well known in control to clarify the basic system features that govern EM. The major result is a subdivision of the biomolecular mechanisms of energy regulation in terms of widely used engineering control mechanisms: proportional, integral, derivative control, and structures: feedback, cascade and feed-forward control. Evidence for each mechanism and structure is demonstrated and the implications for systems properties are shown through simulations. As the equivalence between biological systems and control components presented here is generic, it is also hypothesized that our work could eventually have an applicability that is much wider than the focus of the current study. This model was taken from the CellML repository and automatically converted to SBML. The original model was: Cloutier M, Wellstead P. (2009) - version=1.0 The original CellML model was created by: Catherine Lloyd c.lloyd@auckland.ac.nz The University of Auckland This model originates from BioModels Database: A Database of Annotated Published Models (http://www.ebi.ac.uk/biomodels/). It is copyright (c) 2005-2011 The BioModels.net Team. To the extent…
parameter: 387363
parameter: 387301
parameter: 387307
parameter: 387327
rule: 387231
parameter: 387362
parameter: 387354
rule: 387259
parameter: 387313
parameter: 387266
parameter: 387319
parameter: 387286
parameter: 387339
volume units: 290956
length unit: 076409
parameter: 387348
parameter: 387285
parameter: 387298
rule: 387250
parameter: 387280
units def: 471666
parameter: 387268
parameter: 387331
units def: 471729
rule: 387228
parameter: 387292
time units: 471729
parameter: 387316
parameter: 387271
parameter: 387325
rule: 387265
parameter: 387345
parameter: 387282
rule: 387255
rule: 387253
parameter: 387337
parameter: 387300
units def: 471353
parameter: 387274
parameter: 387357
parameter: 387294
rule: 387234
units def: 471317
units def: 471293
parameter: 387365
parameter: 387360
parameter: 387351
parameter: 387343
is described by: http://identifiers.org/pubmed/19828503
units def: 471390
units def: 471594
parameter: 387328
rule: 387249
parameter: 387283
curated: false
parameter: 387276
rule: 387262
parameter: 387334

387267
constant: false
value: 0.001
name: F26P
type: Parameter

387319
constant: false
value: NaN
name: Cr
type: Parameter

387345
constant: true
value: 0.5
name: nAMP
type: Parameter

387289
constant: false
value: NaN
name: V_pfk2
type: Parameter

471426
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

471341
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

471510
unit: 471558
unit: 471546
unit: 471534
unit: 471522
name: cm_per_mM_s
type: SBMLUnitsDef

387325
constant: true
value: 0.5
name: Km_ATP
type: Parameter

387310
constant: false
value: NaN
name: V_ldh
type: Parameter

471317
unit: 471341
unit: 471329
name: mM
type: SBMLUnitsDef

387359
constant: true
value: 2.0
name: t_n_stim
type: Parameter

given: Catherine
family: Lloyd

given: Catherine
family: Lloyd

ORG:
  orgname: University of Auckland

W3 CDTF: Fri Jun 25 14:19:49 BST 2010

orgname: University of Auckland

W3 CDTF: Fri Jun 25 14:19:49 BST 2010