249035
unit: 249084
unit: 249072
unit: 249059
unit: 249047
name: cm_per_mM_s
type: SBMLUnitsDef

188285
constant: true
value: 0.5
name: Km_ATP_hk
type: Parameter

249084
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

188334
constant: true
value: 0.4
name: nATP
type: Parameter

188327
constant: true
value: 0.641
name: K_LAC
type: Parameter

249264
exponent: 1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

188294
constant: true
value: 0.0
name: Vmaxf_pfk2
type: Parameter

188348
constant: true
value: 0.0
name: v2_n
type: Parameter

249168
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

188275
constant: false
value: 0.2
name: F6P
type: Parameter

188313
constant: true
value: 0.0
name: kr_ldh
type: Parameter

188354
constant: true
value: 0.005
name: Kamp_pfk2
type: Parameter

249180
exponent: -1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

188351
constant: true
value: 0.92
name: Q_adk
type: Parameter

W3 CDTF: Fri Jun 25 13:09:50 BST 2010

188309
constant: true
value: 0.5
name: Km_PYR_op
type: Parameter

188284
constant: true
value: 2.5
name: Vmax_hk
type: Parameter

188300
constant: false
value: NaN
name: V_pk
type: Parameter

188328
constant: false
value: NaN
name: ADP
type: Parameter

248817
unit: 248829
name: s
type: SBMLUnitsDef

188347
constant: true
value: 0.5
name: v1_n
type: Parameter

188333
constant: false
value: NaN
name: ATP_inh
type: Parameter

248987
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

188314
constant: false
value: NaN
name: V_ck
type: Parameter

188353
constant: false
value: NaN
name: AMP_pfk2
type: Parameter

249108
exponent: -1.0
scale: -2
multipler: 1.0
kind: METRE
type: SBMLUnit

249132
exponent: 1.0
scale: 0
multipler: 1.0
kind: COULOMB
type: SBMLUnit

248841
unit: 248865
unit: 248853
name: mM
type: SBMLUnitsDef

248914
unit: 248951
unit: 248939
unit: 248927
name: mM_per_s
type: SBMLUnitsDef

188308
constant: true
value: 0.005
name: Km_ADP_op
type: Parameter

188320
constant: false
value: NaN
name: V_ATPase
type: Parameter

188336
constant: true
value: 1.0
name: KI_ATP
type: Parameter

188287
constant: false
value: NaN
name: V_pfk
type: Parameter

188325
constant: true
value: 0.355
name: Vlac_0
type: Parameter

188315
constant: true
value: 0.0
name: kf_ck
type: Parameter

249047
exponent: 1.0
scale: -2
multipler: 1.0
kind: METRE
type: SBMLUnit

249228
unit: 249240
name: mV
type: SBMLUnitsDef

249252
unit: 249264
name: time
type: SBMLUnitsDef

249072
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

249192
unit: 249216
unit: 249204
name: mS_per_cm2
type: SBMLUnitsDef

188305
constant: false
value: NaN
name: V_op
type: Parameter

188292
constant: true
value: 0.01
name: Km_F26P_pfk
type: Parameter

188286
constant: true
value: 0.068
name: KI_F6P
type: Parameter

188293
constant: false
value: NaN
name: V_pfk2
type: Parameter

248975
exponent: -1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

248829
exponent: 1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

188326
constant: true
value: 0.71
name: K_LAC_eff
type: Parameter

248890
exponent: -1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

188345
constant: true
value: 200.0
name: tend
type: Parameter

188316
constant: true
value: 0.0
name: kr_ck
type: Parameter

188350
constant: true
value: 2.51
name: ANP
type: Parameter

248853
exponent: 1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

188355
constant: true
value: 2.0
name: nh_amp
type: Parameter

249120
unit: 249144
unit: 249132
name: C_per_mole
type: SBMLUnitsDef

248902
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

188306
constant: true
value: 1.0
name: Vmax_op
type: Parameter

188317
constant: false
value: NaN
name: Cr
type: Parameter

188281
constant: false
value: 18.14
name: PCr
type: Parameter

W3 CDTF: Fri Jun 25 13:09:50 BST 2010

188344
constant: true
value: 50.0
name: to
type: Parameter

188279
constant: false
value: 0.5
name: LAC
type: Parameter

188303
constant: true
value: 0.005
name: Km_ADP_pk
type: Parameter

249216
exponent: -2.0
scale: -2
multipler: 1.0
kind: METRE
type: SBMLUnit

249059
exponent: -1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

188290
constant: true
value: 0.05
name: Km_ATP_pfk
type: Parameter

248963
unit: 248999
unit: 248987
unit: 248975
name: per_mM_s
type: SBMLUnitsDef

188298
constant: true
value: 0.01
name: Km_F6P_pfk2
type: Parameter

188338
constant: true
value: 0.5
name: nAMP
type: Parameter

188323
constant: false
value: NaN
name: V_lac
type: Parameter

188278
constant: false
value: 0.1
name: PYR
type: Parameter

188280
constant: false
value: 2.402
name: ATP
type: Parameter

249023
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

MODEL1006230010
length unit: 335510
time units: 249252
curated: false
rule: 188269
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…
rule: 188251
area units: area
parameter: 188317
parameter: 188288
parameter: 188338
rule: 188263
parameter: 188333
parameter: 188353
parameter: 188281
parameter: 188354
parameter: 188305
units def: 249156
rule: 188246
parameter: 188348
parameter: 188321
parameter: 188341
units def: 248963
parameter: 188285
parameter: 188315
parameter: 188336
rule: 188260
rule: 188245
parameter: 188302
substance units: 178797
parameter: 188303
parameter: 188293
parameter: 188323
rule: 188249
rule: 188253
units def: 248914
parameter: 188287
rule: 188271
compartment: 188240
rule: 188265
units def: 248817
parameter: 188275
parameter: 188300
parameter: 188329
parameter: 188320
parameter: 188349
units def: 249120
parameter: 188292
rule: 188272
parameter: 188309
parameter: 188280
parameter: 188351
parameter: 188296
parameter: 188326
rule: 188247
parameter: 188347
units def: 249228
parameter: 188313
parameter: 188284
parameter: 188314
rule: 188259
parameter: 188334
type: SBMLModel
rule: 188261
parameter: 188278
parameter: 188308
parameter: 188298
parameter: 188328
parameter: 188299
rule: 188254
parameter: 188344
parameter: 188286
parameter: 188316
parameter: 188311
parameter: 188331
rule: 188266
parameter: 188332
units def: 248841
rule: 188273
is described by: http://identifiers.org/pubmed/19828503
parameter: 188337

248939
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

188343
constant: true
value: 1.0
name: stim
type: Parameter

188288
constant: true
value: 3.85
name: Vmax_pfk
type: Parameter

248865
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

188291
constant: true
value: 0.18
name: Km_F6P_pfk
type: Parameter

249156
unit: 249180
unit: 249168
name: L_per_millimole
type: SBMLUnitsDef

188304
constant: true
value: 0.4
name: Km_GAP_pk
type: Parameter

249240
exponent: 1.0
scale: -3
multipler: 1.0
kind: VOLT
type: SBMLUnit

188299
constant: true
value: 1.0E-4
name: Km_F26P_pfk2
type: Parameter

188310
constant: false
value: NaN
name: V_ldh
type: Parameter

188337
constant: false
value: NaN
name: AMP_act
type: Parameter

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

188319
constant: true
value: 20.0
name: PCrtot
type: Parameter

188277
constant: false
value: 0.0405
name: GAP
type: Parameter

188332
constant: false
value: NaN
name: AMP
type: Parameter

188240
constant: true
units: litre
size: 1.0
spatial dimensions: 3.0
type: Compartment

188329
constant: false
value: NaN
name: u
type: Parameter

188342
constant: false
value: NaN
name: unitpulseSB
type: Parameter

248951
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

188321
constant: true
value: 0.9355
name: Vmax_ATPase
type: Parameter

249204
exponent: 1.0
scale: -3
multipler: 1.0
kind: SIEMENS
type: SBMLUnit

188296
constant: true
value: 0.0
name: Vmaxr_pfk2
type: Parameter

188311
constant: true
value: 0.0
name: kf_ldh
type: Parameter

249096
unit: 249108
name: per_cm
type: SBMLUnitsDef

188276
constant: false
value: 0.001
name: F26P
type: Parameter

188331
constant: false
value: NaN
name: dAMP_dATP
type: Parameter

248927
exponent: 1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

249144
exponent: -1.0
scale: 0
multipler: 1.0
kind: MOLE
type: SBMLUnit

248877
unit: 248902
unit: 248890
name: per_mM
type: SBMLUnitsDef

188341
constant: false
value: NaN
name: v_stim
type: Parameter

249011
unit: 249023
name: per_s
type: SBMLUnitsDef

188322
constant: true
value: 0.5
name: Km_ATP
type: Parameter

188349
constant: true
value: 2.0
name: t_n_stim
type: Parameter

188302
constant: true
value: 5.0
name: Vmax_pk
type: Parameter

248999
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

188339
constant: true
value: 0.05
name: Ka_AMP
type: Parameter

188297
constant: true
value: 0.05
name: Km_ATP_pfk2
type: Parameter

188282
constant: false
value: NaN
name: V_hk
type: Parameter

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

given: Catherine
family: Lloyd

orgname: University of Auckland

W3 CDTF: Fri Jun 25 13:09:50 BST 2010

W3 CDTF: Fri Jun 25 13:09:50 BST 2010