CDMT00023
exponent: 2.0
scale: 0
multipler: 1.0
kind: METRE
type: SBMLUnit

http://identifiers.org/biomodels.db/BIOMD0000000292#c
is: GO:0009570
is: SBO:0000290
constant: true
units: volume
size: 1.0
spatial dimensions: 3.0
type: Compartment

CDMT00013
is: SBO:0000011
stoichiometry: 1.0
species: ADP
type: SpeciesReference

CDMT00017
is: SBO:0000010
stoichiometry: 1.0
species: ATP
type: SpeciesReference

area
unit: CDMT00023
name: area
type: SBMLUnitsDef

volume
unit: CDMT00022
name: volume
type: SBMLUnitsDef

254867
unit: 254879
name: per_s
type: SBMLUnitsDef

k2
is: SBO:0000035
constant: true
units: 254867
value: 0.625
type: Parameter

N0
has part: C00006
has part: C00005
has part: CHEBI:18009
has part: CHEBI:16474
is: SBO:0000472
constant: true
units: 254783
value: 1.2
type: Parameter

v3
product: CDMT00006
type: Reaction
modifier: CDMT00007
name: v3
reversible: false
kinetic law: CDMT00008
fast: false
is: SBO:0000216
reactant: CDMT00005
is version of: GO:0009777

CDMT00003
is: SBO:0000011
stoichiometry: 1.0
species: NADPH
type: SpeciesReference

254783
unit: 254807
unit: 254795
name: mM
type: SBMLUnitsDef

CDMT00022
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

CDMT00012
is: SBO:0000011
stoichiometry: 1.0
species: http://identifiers.org/biomodels.db/BIOMD0000000292#X
type: SpeciesReference

254843
exponent: -1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

http://identifiers.org/biomodels.db/BIOMD0000000292#Y
has part: C01182
in compartment: http://identifiers.org/biomodels.db/BIOMD0000000292#c
boundary condition: true
initial amount: NaN
name: Y
constant: true
has only substance units: false
has part: CHEBI:17794
initial concentration: 1.0
has part: CHEBI:16710
has part: C00197
type: Species
is: SBO:0000247

length
unit: CDMT00024
name: length
type: SBMLUnitsDef

k3
is: SBO:0000036
constant: true
units: 254819
value: 0.3
type: Parameter

CDMT00016
is: SBO:0000010
stoichiometry: 1.0
species: http://identifiers.org/biomodels.db/BIOMD0000000292#X
type: SpeciesReference

CDMT00006
is: SBO:0000011
stoichiometry: 2.0
species: ATP
type: SpeciesReference

v4
kinetic law: CDMT00004
product: CDMT00003
reactant: CDMT00002
is version of: GO:0009780
is: SBO:0000202
fast: false
reversible: false
name: v4
type: Reaction

CDMT00002
is: SBO:0000010
stoichiometry: 1.0
species: NADP
type: SpeciesReference

A0
is: CHEBI:15422
is: CHEBI:16761
has part: C00008
has part: C00002
is: SBO:0000472
constant: true
units: 254783
value: 2.5
type: Parameter

CDMT00019
is: SBO:0000011
stoichiometry: 1.0
species: ADP
type: SpeciesReference

CDMT00005
is: SBO:0000010
stoichiometry: 2.0
species: ADP
type: SpeciesReference

ATP
is: CHEBI:15422
is: C00002
boundary condition: false
name: ATP
in compartment: http://identifiers.org/biomodels.db/BIOMD0000000292#c
is: SBO:0000247
has only substance units: false
initial amount: NaN
constant: false
type: Species
initial concentration: 0.5

CDMT00021
exponent: 1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

http://identifiers.org/biomodels.db/BIOMD0000000292#X
has part: CHEBI:48153
has part: C05382
has part: CHEBI:17969
type: Species
name: X
has part: CHEBI:16108
has part: CHEBI:17363
has part: C00447
is: SBO:0000247
has part: C00117
constant: false
has part: C00279
in compartment: http://identifiers.org/biomodels.db/BIOMD0000000292#c
has part: C00118
has part: CHEBI:29052
initial concentration: 2.0
boundary condition: false
initial amount: NaN
has only substance units: false
has part: CHEBI:15721
has part: C00111
has part: C00085
has part: CHEBI:17797
has part: C00354
has part: CHEBI:15946
has part: C00199
has part: CHEBI:16905

254819
unit: 254855
unit: 254843
unit: 254831
name: per_mM_per_s
type: SBMLUnitsDef

CDMT00011
is: SBO:0000010
stoichiometry: 1.0
species: ATP
type: SpeciesReference

CDMT00025
exponent: 1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

254879
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

v1
is version of: http://identifiers.org/ec-code/2.7.1.19
fast: false
is: SBO:0000216
reactant: CDMT00017
kinetic law: CDMT00020
product: CDMT00019
type: Reaction
reactant: CDMT00016
is version of: R01523
product: CDMT00018
name: v1
reversible: false

NADPH
boundary condition: false
is: SBO:0000247
is: CHEBI:16474
in compartment: http://identifiers.org/biomodels.db/BIOMD0000000292#c
has only substance units: false
constant: false
name: NADPH
initial amount: NaN
type: Species
is: C00005
initial concentration: 0.7

time
unit: CDMT00025
name: time
type: SBMLUnitsDef

CDMT00009
is: SBO:0000010
stoichiometry: 1.0
species: http://identifiers.org/biomodels.db/BIOMD0000000292#Y
type: SpeciesReference

254855
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

k4
is: SBO:0000035
constant: true
units: 254867
value: 0.614
type: Parameter

254831
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

CDMT00018
is: SBO:0000011
stoichiometry: 1.0
species: http://identifiers.org/biomodels.db/BIOMD0000000292#Y
type: SpeciesReference

CDMT00014
is: SBO:0000011
stoichiometry: 1.0
species: NADP
type: SpeciesReference

CDMT00010
is: SBO:0000010
stoichiometry: 1.0
species: NADPH
type: SpeciesReference

substance
unit: CDMT00021
name: mmole
type: SBMLUnitsDef

CDMT00024
exponent: 1.0
scale: 0
multipler: 1.0
kind: METRE
type: SBMLUnit

254807
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

NADP
constant: false
is: CHEBI:18009
boundary condition: true
initial amount: NaN
name: NADP_super_+
is: C00006
initial concentration: 0.5
in compartment: http://identifiers.org/biomodels.db/BIOMD0000000292#c
is: SBO:0000247
has only substance units: false
type: Species

k1
is: SBO:0000035
constant: true
units: 254867
value: 0.123
type: Parameter

ADP
is: SBO:0000247
type: Species
constant: false
has only substance units: false
initial concentration: 2.0
is: C00008
initial amount: NaN
is: CHEBI:16761
name: ADP
boundary condition: true
in compartment: http://identifiers.org/biomodels.db/BIOMD0000000292#c

254795
exponent: 1.0
scale: -3
multipler: 1.0
kind: MOLE
type: SBMLUnit

v2
reactant: CDMT00011
has version: http://identifiers.org/ec-code/2.7.2.3
has version: R01063
is: SBO:0000182
product: CDMT00012
reversible: false
fast: false
reactant: CDMT00009
has version: http://identifiers.org/ec-code/1.2.1.13
type: Reaction
reactant: CDMT00010
name: v2
has version: http://identifiers.org/ec-code/1.2.1.59
product: CDMT00013
has version: R01512
kinetic law: CDMT00015
product: CDMT00014

BIOMD0000000292
parameter: A0
area units: area
volume units: volume
parameter: N0
creator:
  ORG:
    orgname: University of Vienna
  n:
    given: Rainer
    family: Machne
units def: substance
units def: length
parameter: k1
parameter: k3
species: http://identifiers.org/biomodels.db/BIOMD0000000292#X
species: NADP
is: MODEL1101060001
species: ATP
time units: time
parameter: k4
units def: 254783
reaction: v2
curated: true
parameter: k2
species: NADPH
occurs in: http://identifiers.org/taxonomy/33090
units def: 254867
substance units: substance
length unit: length
is described by: http://identifiers.org/pubmed/7772723
rule: CDMT00027
modified:
  W3 CDTF: Wed Jul 11 19:04:33 BST 2012
is version of: GO:0019253
species: ADP
units def: time
units def: 254819
units def: volume
name: Rovers1995_Photsynthetic_Oscillations
reaction: v1
reaction: v4
reaction: v3
notes: This is the model described in the article: Photosynthetic oscillations and the interdependence of photophosphorylation and electron transport as studied by a mathematical model. Rovers W, Giersch C. Biosystems. 1995;35(1):63-73. PMID: 7772723 Abstract: A simple mathematical model of photosynthetic carbon metabolism as driven by ATP and NADPH has been formulated to analyse photosynthetic oscillations. Two essential assumptions of this model are: (i) reduction of 3-phosphoglycerate to triosephosphate in the Clavin cycle is limited by ATP, not by NADPH, and (ii) photophosphorylation is affected by the availability of both ADP and NADP, while electron transport is limited by NADP only. The model produces oscillations of observed damping and period in ATP and NADP concentrations which are about 180 degrees out of phase, while three alternative proposals regarding coupling of electron transport and photophosphorylation do not produce oscillatory model solutions. The phases of ATP and NADPH are in reasonable agreement with the available experimental data. The model (which assumes that redox control of photophosphorylation is part of the oscillatory mechanism) is compared with an alternative proposal (that oscillations are due to interdependence of turnover of adenylates and Calvin cycle intermediates). From the similarity of the mathematical structures of both models it is inviting to speculate that both models are partial aspects of the oscillatory mechanism. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information. In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not. To cite BioModels Database, please use: Li C, Donizelli M,…
type: SBMLModel
species: http://identifiers.org/biomodels.db/BIOMD0000000292#Y
created:
  W3 CDTF: Thu Jan 06 23:40:34 GMT 2011
units def: area
rule: CDMT00026
is version of: rn00710
compartment: http://identifiers.org/biomodels.db/BIOMD0000000292#c