metaid_0000009
initial concentration: 0.0
constant: false
type: Species
in compartment: metaid_0000003
is: C00027
boundary condition: false
is: CHEBI:16240
initial amount: NaN
name: H2O2
has only substance units: false

605198
stoichiometry: 1.0
species: metaid_0000005
type: SpeciesReference

metaid_0000014
is version of: CHEBI:18059
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: metaid_0000003
name: L*
type: Species

605505
stoichiometry: 1.0
species: metaid_0000012
type: SpeciesReference

metaid_0000040
kinetic law: 605313
product: 605301
reactant: 605289
reactant: 605276
fast: false
reversible: false
name: v5
type: Reaction

metaid_0000028
constant: true
value: 0.0087
name: k13a
type: Parameter

metaid_0000020
constant: true
value: 100000.0
name: k4
type: Parameter

metaid_0000049
kinetic law: 605601
product: 605589
reactant: 605577
fast: false
reversible: false
name: v17
type: Reaction

metaid_0000054
has version: IPR002226
constant: true
boundary condition: false
has only substance units: false
initial concentration: 1.0E-5
initial amount: NaN
in compartment: metaid_0000003
name: Cat
type: Species

605146
stoichiometry: 1.0
species: metaid_0000005
type: SpeciesReference

605686
stoichiometry: 1.0
species: metaid_0000004
type: SpeciesReference

605433
stoichiometry: 1.0
species: metaid_0000014
type: SpeciesReference

605237
stoichiometry: 1.0
species: metaid_0000010
type: SpeciesReference

metaid_0000033
kinetic law: 605120
product: 605108
is version of: GO:0042554
fast: false
reversible: false
name: v1
type: Reaction

metaid_0000029
constant: true
value: 0.0087
name: k13b
type: Parameter

605133
stoichiometry: 1.0
species: metaid_0000004
type: SpeciesReference

metaid_0000048
kinetic law: 605565
reactant: 605553
is version of: GO:0009055
fast: false
reversible: false
name: v13b
type: Reaction

metaid_0000053
is version of: IPR001424
constant: true
boundary condition: false
has only substance units: false
initial concentration: 1.0E-5
initial amount: NaN
in compartment: metaid_0000003
name: SODtotal
type: Species

metaid_0000023
constant: true
value: 3.4E7
name: k7
type: Parameter

605577
stoichiometry: 1.0
species: metaid_0000014
type: SpeciesReference

metaid_0000011
is: CHEBI:29191
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: metaid_0000003
name: HO*
type: Species

metaid_0000032
constant: true
value: 88000.0
name: k19
type: Parameter

605373
stoichiometry: 1.0
species: metaid_0000009
type: SpeciesReference

metaid_0000012
is: C01025
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: metaid_0000003
name: LOOH
type: Species

metaid_0000042
kinetic law: 605397
modifier: 605385
reactant: 605373
is version of: GO:0004096
is version of: http://identifiers.org/ec-code/1.11.1.6
fast: false
reversible: false
name: v7
type: Reaction

605301
stoichiometry: 2.0
species: metaid_0000011
type: SpeciesReference

metaid_0000022
constant: true
value: 1.0
name: k6
type: Parameter

605445
stoichiometry: 1.0
species: metaid_0000009
type: SpeciesReference

metaid_0000031
constant: true
value: 7.0
name: k18
type: Parameter

605172
stoichiometry: 1.0
species: metaid_0000004
type: SpeciesReference

metaid_0000041
kinetic law: 605361
modifier: 605349
product: 605337
reactant: 605325
fast: false
reversible: false
name: v6
type: Reaction

metaid_0000003
is version of: GO:0005623
constant: true
size: 1.0
spatial dimensions: 3.0
name: cell
type: Compartment

metaid_0000051
kinetic law: 605674
reactant: 605662
fast: false
reversible: false
name: v19
type: Reaction

metaid_0000021
constant: true
value: 20000.0
name: k5
type: Parameter

metaid_0000005
is version of: IPR001424
constant: false
boundary condition: false
has only substance units: false
initial concentration: 5.0E-6
initial amount: NaN
in compartment: metaid_0000003
name: Cu(II)ZnSOD
type: Species

metaid_0000039
kinetic law: 605263
product: 605250
reactant: 605237
reactant: 605224
fast: false
reversible: false
name: v4
type: Reaction

metaid_0000044
kinetic law: 605457
product: 605445
product: 605433
fast: false
reversible: false
name: v10
type: Reaction

metaid_0000019
constant: true
value: 1.6E9
name: k3
type: Parameter

metaid_0000030
constant: true
value: 30000.0
name: k17
type: Parameter

metaid_0000025
constant: true
value: 1000.0
name: k10
type: Parameter

605289
stoichiometry: 1.0
species: metaid_0000009
type: SpeciesReference

metaid_0000050
kinetic law: 605650
product: 605638
product: 605626
reactant: 605614
fast: false
reversible: false
name: v18
type: Reaction

605614
stoichiometry: 1.0
species: metaid_0000010
type: SpeciesReference

metaid_0000045
kinetic law: 605493
product: 605481
reactant: 605469
fast: false
reversible: false
name: v11
type: Reaction

metaid_0000059
constant: false
value: 0.0
name: Cu(I)ZnSOD
type: Parameter

605529
stoichiometry: 1.0
species: metaid_0000005
type: SpeciesReference

605662
stoichiometry: 2.0
species: metaid_0000010
type: SpeciesReference

605469
stoichiometry: 1.0
species: metaid_0000011
type: SpeciesReference

605481
stoichiometry: 1.0
species: metaid_0000014
type: SpeciesReference

605108
stoichiometry: 1.0
species: metaid_0000004
type: SpeciesReference

metaid_0000004
initial amount: NaN
boundary condition: false
has only substance units: false
constant: false
is: CHEBI:18421
is: C00704
type: Species
initial concentration: 0.0
name: O2*-
in compartment: metaid_0000003

metaid_0000010
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: metaid_0000003
name: LOO*
type: Species

metaid_0000038
product: 605185
kinetic law: 605211
fast: false
is part of: GO:0004784
reversible: false
product: 605198
is version of: R05743
reactant: 605172
is version of: http://identifiers.org/ec-code/1.15.1.2
name: v3
type: Reaction

605325
stoichiometry: 1.0
species: metaid_0000009
type: SpeciesReference

metaid_0000018
constant: true
value: 1.6E9
name: k2
type: Parameter

metaid_0000043
kinetic law: 605421
reactant: 605409
is version of: GO:0044248
fast: false
reversible: false
name: v9
type: Reaction

metaid_0000024
constant: true
value: 1000000.0
name: k9
type: Parameter

metaid_0000037
kinetic law: 605159
reactant: 605146
reactant: 605133
is part of: GO:0004784
fast: false
reversible: false
name: v2
type: Reaction

605250
stoichiometry: 1.0
species: metaid_0000012
type: SpeciesReference

metaid_0000017
constant: true
value: 6.6E-7
name: k1
type: Parameter

metaid_0000027
constant: true
value: 0.38
name: k12
type: Parameter

metaid_0000047
kinetic law: 605541
product: 605529
is version of: GO:0009055
fast: false
reversible: false
name: v13a
type: Reaction

605185
stoichiometry: 1.0
species: metaid_0000009
type: SpeciesReference

605553
stoichiometry: 1.0
species: metaid_0000005
type: SpeciesReference

605626
stoichiometry: 1.0
species: metaid_0000014
type: SpeciesReference

metaid_0000057
constant: false
value: 0.0
name: HO2*
type: Parameter

605337
stoichiometry: 2.0
species: metaid_0000011
type: SpeciesReference

605638
stoichiometry: 1.0
species: metaid_0000012
type: SpeciesReference

metaid_0000055
notes: HO2*=O2*/100

metaid_0000060
kinetic law: 605698
reactant: 605686
notes: Reaction16 showed in the paper is a fast equilibrium reaction. HO2* =" H+" + "O2*-". So in the equation (1) in the paper, you will see there is one item k10*"HO2*" . However, most simulation software does not support fast reaction yet, so curator creat this fake v16 reaction in order to make the final ODE correct.
fast: false
reversible: true
name: v16
type: Reaction

BIOMD0000000108
reaction: metaid_0000037
species: metaid_0000054
parameter: metaid_0000057
reaction: metaid_0000045
length unit: length
is version of: GO:0004784
modified:
  W3 CDTF: Thu Jul 05 15:40:13 BST 2012
reaction: metaid_0000060
parameter: metaid_0000030
parameter: metaid_0000032
parameter: metaid_0000025
reaction: metaid_0000040
parameter: metaid_0000020
curated: true
reaction: metaid_0000048
notes: This model is according to the paper from Axel Kowald Alternative pathways as mechanism for the negative effects associated with overexpression of superoxide dismutase. Reactions from 1 to 17 are listed in the paper, note that for clarity species whose concentrations are assumed to be constant (e.g.water, oxygen,protons, metal ions) are omitted from the diagram. In the paper, v16 is a fast reaction, but we do not use fast reaction in the model. Figure2 has been reproduced by both SBMLodeSolver and Copasi4.0.20(development) . Figure 3 has been obtained with Copasi4.0.20(development) using parameter scan. The steady-state of [LOO*] a little bit lower than showed on the paper, I guess it may be the simulation method used in the paper use fast reaction and also the reaction (5) listed on Page 831 on the paper is slightly different from equation (2) on Page 832. The rest of them are the quite the same. 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, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.
occurs in: http://identifiers.org/taxonomy/131567
parameter: metaid_0000017
reaction: metaid_0000043
rule: metaid_0000055
area units: metaid_0000005
parameter: metaid_0000029
type: SBMLModel
reaction: metaid_0000051
species: metaid_0000012
is: MODEL5128825728
parameter: metaid_0000031
parameter: metaid_0000024
reaction: metaid_0000039
volume units: metaid_0000004
parameter: metaid_0000059
species: metaid_0000010
reaction: metaid_0000047
parameter: metaid_0000027
species: metaid_0000009
reaction: metaid_0000042
is described by: http://identifiers.org/pubmed/16085106
parameter: metaid_0000022
compartment: metaid_0000003
creator:
  ORG:
    orgname: BNMC
  n:
    given: Enuo
    family: He
parameter: metaid_0000028
parameter: metaid_0000019
species: metaid_0000011
species: metaid_0000004
substance units: metaid_0000084
species: metaid_0000005
reaction: metaid_0000050
parameter: metaid_0000023
reaction: metaid_0000038
reaction: metaid_0000046
reaction: metaid_0000033
species: metaid_0000014
name: Kowald2006_SOD
created:
  W3 CDTF: Wed Mar 28 13:43:05 BST 2007
parameter: metaid_0000026
reaction: metaid_0000041
time units: metaid_0000086
is version of: GO:0006801
parameter: metaid_0000021
reaction: metaid_0000049
parameter: metaid_0000018
reaction: metaid_0000044
rule: metaid_0000056
species: metaid_0000053

metaid_0000026
constant: true
value: 2.5E8
name: k11
type: Parameter

metaid_0000046
kinetic law: 605517
reactant: 605505
fast: false
reversible: false
name: v12
type: Reaction

605224
stoichiometry: 1.0
species: metaid_0000004
type: SpeciesReference

605409
stoichiometry: 1.0
species: metaid_0000011
type: SpeciesReference

605276
stoichiometry: 1.0
species: metaid_0000004
type: SpeciesReference

metaid_0000056
notes: Cu(I)ZnSOD=SODtotal-Cu(II)ZnSOD

605589
stoichiometry: 1.0
species: metaid_0000010
type: SpeciesReference