MODEL9086953089
type: SBMLModel
species: 725180
reaction: 728020
reaction: 726820
units def: 331380
reaction: 728580
substance units: 331380
is described by: http://identifiers.org/pubmed/16110334
species: 724260
species: 724920
species: 726280
reaction: 727860
rule: 726340
reaction: 726640
species: 725020
species: 725480
reaction: 727540
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species: 724100
species: 724560
reaction: 728080
units def: 331283
reaction: 727420
species: 724200
reaction: 727100
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species: 725640
reaction: 726700
reaction: 727020
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species: 724240
reaction: 726980
reaction: 727480
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compartment: 723947
reaction: 728500
rule: 726440
length unit: length
reaction: 726880
reaction: 726540
species: 726100
reaction: 727320
reaction: 727080
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species: 724340
species: 725600
reaction: 727900
reaction: 728400
reaction: 726780
reaction: 728440
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species: 725060
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species: 725380
area units: area
reaction: 728680
reaction: 728260
species: 724020
species: 725740
reaction: 727960
reaction: 727380
species: 724760
species: 725780
species: 726000
reaction: 728280
species: 724620
reaction: 726900
reaction: 727400
reaction: 727520
reaction: 727980
rule: 726360
species: 724080
reaction: 728300
species: 726040
species: 725840
curated: false
reaction: 726800
species: 726120

725180
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

723980
type: Compartment
constant: true
size: 1.0E-17
spatial dimensions: 3.0

728020
type: Reaction
kinetic law: 335079
product: 335067
reactant: 335055
reactant: 335043
fast: false
reversible: true

335079
type: KineticLaw
local parameters: 958661
local parameters: 958659
notes: k1*CaMKII_minus_CaM_minus_PSD*tot_minus_auto_minus_PSD-k2*tot_minus_auto_minus_PSD_slash_auton_minus_286_minus_PSD_slash_auton_minus_286_minus_PSD_cplx

958661
type: LocalParameter
units: 331247
value: 2.0E-17

331271
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exponent: -1.0
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kind: SECOND

331259
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exponent: 1.0
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kind: LITRE

958659
type: LocalParameter
units: 331331
value: 4.99998E-20

331368
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND

331356
type: SBMLUnit
exponent: -1.0
scale: -6
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kind: MOLE

331343
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exponent: 2.0
scale: 0
multipler: 1.0
kind: LITRE

335067
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stoichiometry: 1.0
species: 724940

724940
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constant: false
boundary condition: false
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335055
type: SpeciesReference
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species: 726160

726160
type: Species
constant: false
boundary condition: true
has only substance units: false
initial concentration: 2.0
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335043
type: SpeciesReference
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species: 724840

724840
type: Species
constant: false
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initial concentration: 0.0
initial amount: NaN
in compartment: 723980

726820
type: Reaction
kinetic law: 332259
product: 332247
reactant: 332235
reactant: 332223
notes: Same values as for the main compartment Can the main compartment pool of Ca/CaM be used?
fast: false
reversible: true

332259
type: KineticLaw
local parameters: 958526
local parameters: 958525
notes: kf*CaMKII_minus_thr286_minus_PSD*CaM_minus_Ca4_minus_PSD-kb*CaMKII_minus_thr286_minus_CaM_minus_PSD

958526
type: LocalParameter
units: 331247
value: 1.0E-18

958525
type: LocalParameter
units: 331331
value: 1.00002E-14

332247
type: SpeciesReference
stoichiometry: 1.0
species: 724820

724820
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

332235
type: SpeciesReference
stoichiometry: 1.0
species: 725020

725020
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

332223
type: SpeciesReference
stoichiometry: 1.0
species: 724860

724860
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

331392
type: SBMLUnit
exponent: 1.0
scale: -6
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kind: MOLE

728580
type: Reaction
kinetic law: 336437
modifier: 336425
product: 336413
reactant: 336401
notes: 17 Feb 2005 Halved Vmax as the amount of enzyme has been doubled to get an integer value in the spine. 18 Feb 2005. Updated Km from BRENDA: EC No 4.6.1.1 Rat Km: 0.95 mM Turnover 12/sec. Human Km: 0.3 mM 12 umol/min/mg for mammalia, turnover is 12/sec See PMID 8663304 by Dessauer and Gilman JBC 271 1996 Unfortunately turnover range is from 34 down to 0.1 in different studies, according to BRENDA.
fast: false
reversible: false

336437
type: KineticLaw
local parameters: 958726
local parameters: 958724
notes: kcat*AC_slash_AC1_minus_CaM*AC_slash_ATP/(Km+AC_slash_ATP)

958726
type: LocalParameter
units: 331210
value: 299.9976000192

331235
type: SBMLUnit
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE

331222
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE

958724
type: LocalParameter
units: 331247
value: 4.05E-16

725480
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

723960
type: Compartment
constant: true
size: 9.0E-17
spatial dimensions: 3.0

336413
type: SpeciesReference
stoichiometry: 1.0
species: 725460

725460
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

336401
type: SpeciesReference
stoichiometry: 1.0
species: 726080

726080
type: Species
notes: ATP is present in all cells between 2 and 10 mM. See Lehninger
constant: true
boundary condition: true
has only substance units: false
initial concentration: 2000.0
initial amount: NaN
in compartment: 723960

724260
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 20.0
initial amount: NaN
in compartment: 723960

724920
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

726280
type: Species
constant: false
boundary condition: true
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

727860
type: Reaction
kinetic law: 334690
product: 334678
reactant: 334665
reactant: 334652
notes: k1 changed from 3.3e-6 to 6.6e-6
fast: false
reversible: true

334690
type: KineticLaw
local parameters: 958641
local parameters: 958639
notes: k1*PP1_PSD_slash_PP1_minus_I1_star_*PP2A-k2*PP2A_slash_PP2A_minus_dephosph_minus_PP1_minus_I_star__PSD_slash_PP2A_minus_dephosph_minus_PP1_minus_I_star__PSD_cplx

958641
type: LocalParameter
units: 331247
value: 7.50006E-16

958639
type: LocalParameter
units: 331331
value: 6.4584E-18

334678
type: SpeciesReference
stoichiometry: 1.0
species: 724700

724700
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.00127907407407407
initial amount: NaN
in compartment: 723960

334665
type: SpeciesReference
stoichiometry: 1.0
species: 724620

724620
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.111111111111111
initial amount: NaN
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334652
type: SpeciesReference
stoichiometry: 1.0
species: 725100

725100
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

726640
type: Reaction
kinetic law: 331826
product: 331814
product: 331802
reactant: 331790
notes: Let us assume that the equil in this case is very far over to the right. This is probably safe.
fast: false
reversible: true

331826
type: KineticLaw
local parameters: 958507
local parameters: 958506
notes: kf*PP1_slash_PP1_minus_I1-kb*PP1_minus_active*PP1_slash_I1

958507
type: LocalParameter
units: 331331
value: 0.0

958506
type: LocalParameter
units: 331247
value: 9.0E-17

331814
type: SpeciesReference
stoichiometry: 1.0
species: 724540

724540
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.8
initial amount: NaN
in compartment: 723960

331802
type: SpeciesReference
stoichiometry: 1.0
species: 724040

724040
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.8
initial amount: NaN
in compartment: 723960

331790
type: SpeciesReference
stoichiometry: 1.0
species: 724600

724600
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727540
type: Reaction
kinetic law: 333913
product: 333901
reactant: 333889
reactant: 333877
notes: Same rates as PKA-phosph-I1
fast: false
reversible: true

333913
type: KineticLaw
local parameters: 958601
local parameters: 958599
notes: k1*AC_slash_cAMP_minus_PDE*PKA_minus_active-k2*PKA_minus_active_slash_phosph_minus_PDE_slash_phosph_minus_PDE_cplx

958601
type: LocalParameter
units: 331247
value: 3.24E-15

958599
type: LocalParameter
units: 331331
value: 5.399946E-16

333901
type: SpeciesReference
stoichiometry: 1.0
species: 724240

724240
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

333889
type: SpeciesReference
stoichiometry: 1.0
species: 724180

724180
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

333877
type: SpeciesReference
stoichiometry: 1.0
species: 725580

725580
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.555555555555556
initial amount: NaN
in compartment: 723960

724880
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

724100
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

724560
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

728080
type: Reaction
kinetic law: 335223
product: 335211
product: 335199
reactant: 335187
fast: false
reversible: false

335223
type: KineticLaw
local parameters: 958667
notes: k3*tot_minus_auto_minus_PSD_slash_auton_minus_autoph_slash_auton_minus_autoph_cplx

958667
type: LocalParameter
units: 331247
value: 2.0E-17

335211
type: SpeciesReference
stoichiometry: 1.0
species: 726160

335199
type: SpeciesReference
stoichiometry: 1.0
species: 724860

335187
type: SpeciesReference
stoichiometry: 1.0
species: 724960

724960
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

331319
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND

331307
type: SBMLUnit
exponent: -2.0
scale: -6
multipler: 1.0
kind: MOLE

331295
type: SBMLUnit
exponent: 3.0
scale: 0
multipler: 1.0
kind: LITRE

727420
type: Reaction
kinetic law: 333624
product: 333612
reactant: 333600
reactant: 333587
fast: false
reversible: true

333624
type: KineticLaw
local parameters: 958586
local parameters: 958584
notes: k1*CaMKII_slash_CaMK_minus_thr305*PP1_minus_active-k2*PP1_minus_active_slash_Deph_minus_thr305a_slash_Deph_minus_thr305a_cplx

958586
type: LocalParameter
units: 331247
value: 9.0E-16

958584
type: LocalParameter
units: 331331
value: 2.2062942E-16

333612
type: SpeciesReference
stoichiometry: 1.0
species: 724140

724140
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

333600
type: SpeciesReference
stoichiometry: 1.0
species: 724040

333587
type: SpeciesReference
stoichiometry: 1.0
species: 724440

724440
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

724200
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727100
type: Reaction
kinetic law: 332841
product: 332829
reactant: 332817
notes: Represents diffusion, from a volume of 9e-20 to 5e-18. Assuming neck dimensions of 0.1 x 0.1 microns, this works out to a diffusion const of about 270 um^2/sec, which is pretty conservative. It is what cAMP does in frog cilia.
fast: false
reversible: true

332841
type: KineticLaw
local parameters: 958555
local parameters: 958554
notes: kf*cAMP-kb*AC_slash_cAMP_in_dend

958555
type: LocalParameter
units: 331247
value: 2.7E-14

958554
type: LocalParameter
units: 331247
value: 2.7E-14

332829
type: SpeciesReference
stoichiometry: 1.0
species: 725740

725740
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 724000

724000
type: Compartment
constant: true
size: 5.0E-15
spatial dimensions: 3.0

332817
type: SpeciesReference
stoichiometry: 1.0
species: 725460

725140
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 4.0
initial amount: NaN
in compartment: 723980

725640
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

726700
type: Reaction
kinetic law: 331970
product: 331958
reactant: 331946
reactant: 331934
fast: false
reversible: true

331970
type: KineticLaw
local parameters: 958513
local parameters: 958512
notes: kf*CaM_minus_Ca4*CaNAB_minus_Ca4-kb*CaM_Ca_n_minus_CaNAB

958513
type: LocalParameter
units: 331247
value: 9.0E-17

958512
type: LocalParameter
units: 331331
value: 5.399946E-14

331958
type: SpeciesReference
stoichiometry: 1.0
species: 725280

725280
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

331946
type: SpeciesReference
stoichiometry: 1.0
species: 724720

724720
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

331934
type: SpeciesReference
stoichiometry: 1.0
species: 724020

724020
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727020
type: Reaction
kinetic law: 332683
product: 332671
reactant: 332659
reactant: 332647
notes: Half-max at 20 nM CaM (Tang et al JBC 266:13 8595-8603 1991 kb/kf = 20 nM = 12000 #/cell so kf = kb/12000 = kb * 8.333e-5
fast: false
reversible: true

332683
type: KineticLaw
local parameters: 958547
local parameters: 958546
notes: kf*CaM_minus_Ca4*AC_slash_AC1-kb*AC_slash_AC1_minus_CaM

958547
type: LocalParameter
units: 331247
value: 9.0E-17

958546
type: LocalParameter
units: 331331
value: 4.4999712E-15

332671
type: SpeciesReference
stoichiometry: 1.0
species: 725480

332659
type: SpeciesReference
stoichiometry: 1.0
species: 725500

725500
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0740740740740741
initial amount: NaN
in compartment: 723960

332647
type: SpeciesReference
stoichiometry: 1.0
species: 724020

725800
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

726980
type: Reaction
kinetic law: 332599
product: 332587
reactant: 332575
fast: false
reversible: true

332599
type: KineticLaw
local parameters: 958543
local parameters: 958542
notes: kf*basal_CaMKII_PSD_control-kb*basal_CaMKII_PSD

958543
type: LocalParameter
units: 331247
value: 1.0E-17

958542
type: LocalParameter
units: 331247
value: 1.0E-17

332587
type: SpeciesReference
stoichiometry: 1.0
species: 725380

725380
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.0
initial amount: NaN
in compartment: 723980

332575
type: SpeciesReference
stoichiometry: 1.0
species: 726060

726060
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: 2.0
initial amount: NaN
in compartment: 723980

727480
type: Reaction
kinetic law: 333768
product: 333756
product: 333744
reactant: 333732
fast: false
reversible: false

333768
type: KineticLaw
local parameters: 958592
notes: k3*PKA_minus_active_slash_PKA_minus_phosph_minus_I1_slash_PKA_minus_phosph_minus_I1_cplx

958592
type: LocalParameter
units: 331247
value: 8.1E-16

333756
type: SpeciesReference
stoichiometry: 1.0
species: 724180

333744
type: SpeciesReference
stoichiometry: 1.0
species: 724560

333732
type: SpeciesReference
stoichiometry: 1.0
species: 724200

725540
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0740740740740741
initial amount: NaN
in compartment: 723960

725000
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.00254583333333333
initial amount: NaN
in compartment: 723980

728380
type: Reaction
kinetic law: 335953
product: 335941
reactant: 335929
reactant: 335917
fast: false
reversible: true

335953
type: KineticLaw
local parameters: 958701
local parameters: 958699
notes: k1*PP1_PSD_slash_I1_star_*CaM_Ca_n_minus_CaNAB-k2*CaM_Ca_n_minus_CaNAB_slash_dephosph_inhib1_PSD_slash_dephosph_inhib1_PSD_cplx

958701
type: LocalParameter
units: 331247
value: 1.224E-16

958699
type: LocalParameter
units: 331331
value: 3.420036E-18

335941
type: SpeciesReference
stoichiometry: 1.0
species: 725340

725340
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

335929
type: SpeciesReference
stoichiometry: 1.0
species: 725280

335917
type: SpeciesReference
stoichiometry: 1.0
species: 725080

725080
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

723947
type: Compartment
constant: true
size: 1.0E-18
spatial dimensions: 3.0

728500
type: Reaction
kinetic law: 336243
product: 336231
reactant: 336219
reactant: 336207
fast: false
reversible: true

336243
type: KineticLaw
local parameters: 958716
local parameters: 958714
notes: k1*CaMKII_minus_CaM_minus_PSD*tot_minus_CaM_minus_CaMKII_minus_PSD-k2*tot_minus_CaM_minus_CaMKII_minus_PSD_slash_CaM_minus_act_minus_286_minus_PSD_slash_CaM_minus_act_minus_286_minus_PSD_cplx

958716
type: LocalParameter
units: 331247
value: 2.0E-17

958714
type: LocalParameter
units: 331331
value: 7.8126E-20

336231
type: SpeciesReference
stoichiometry: 1.0
species: 725420

725420
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

336219
type: SpeciesReference
stoichiometry: 1.0
species: 726280

336207
type: SpeciesReference
stoichiometry: 1.0
species: 724840

726880
type: Reaction
kinetic law: 332392
product: 332380
reactant: 332368
reactant: 332356
notes: K inhib = 1nM from Cohen Ann Rev Bioch 1989, 4 nM from Foukes et al Assume 2 nM. kf /kb = 8.333e-4
fast: false
reversible: true

332392
type: KineticLaw
local parameters: 958532
local parameters: 958531
notes: kf*PP1_PSD_slash_I1_star_*PP1_minus_active_PSD-kb*PP1_PSD_slash_PP1_minus_I1_star_

958532
type: LocalParameter
units: 331247
value: 1.0E-18

958531
type: LocalParameter
units: 331331
value: 4.9998E-15

332380
type: SpeciesReference
stoichiometry: 1.0
species: 725100

332368
type: SpeciesReference
stoichiometry: 1.0
species: 725140

332356
type: SpeciesReference
stoichiometry: 1.0
species: 725080

726540
type: Reaction
kinetic law: 331585
product: 331573
reactant: 331561
reactant: 331549
notes: K3 = 21.5, K4 = 2.8. Assuming that the K4 step happens first, we get kb/kf = 2.8 uM = 1.68e6 so kf =6e-6 assuming kb = 10
fast: false
reversible: true

331585
type: KineticLaw
local parameters: 958496
local parameters: 958495
notes: kf*CaM_minus_TR2_minus_Ca2*Ca-kb*CaM_minus_Ca3

958496
type: LocalParameter
units: 331247
value: 9.0E-16

958495
type: LocalParameter
units: 331331
value: 3.2400162E-16

331573
type: SpeciesReference
stoichiometry: 1.0
species: 724500

724500
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

331561
type: SpeciesReference
stoichiometry: 1.0
species: 724160

724160
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.08
initial amount: NaN
in compartment: 723960

331549
type: SpeciesReference
stoichiometry: 1.0
species: 724520

724520
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

726100
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: 0.1
initial amount: NaN
in compartment: 723960

727320
type: Reaction
kinetic law: 333374
product: 333361
product: 333349
reactant: 333337
fast: false
reversible: false

333374
type: KineticLaw
local parameters: 958576
notes: k3*PP1_minus_active_slash_Deph_minus_thr286b_slash_Deph_minus_thr286b_cplx

958576
type: LocalParameter
units: 331247
value: 2.25E-16

333361
type: SpeciesReference
stoichiometry: 1.0
species: 724040

333349
type: SpeciesReference
stoichiometry: 1.0
species: 724260

333337
type: SpeciesReference
stoichiometry: 1.0
species: 724080

724080
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727080
type: Reaction
kinetic law: 332804
product: 332792
reactant: 332780
reactant: 332767
notes: For olf epi PDE1, affinity is 7 nM. Assume same for brain. Reaction should be pretty fast. Assume kb = 5/sec. Then kf = 5 / (0.007 * 6e5) = 1.2e-3
fast: false
reversible: true

332804
type: KineticLaw
local parameters: 958553
local parameters: 958552
notes: kf*AC_slash_PDE1*CaM_minus_Ca4-kb*AC_slash_CaM_dot_PDE1

958553
type: LocalParameter
units: 331247
value: 4.5E-16

958552
type: LocalParameter
units: 331331
value: 6.479838E-14

332792
type: SpeciesReference
stoichiometry: 1.0
species: 725700

725700
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

332780
type: SpeciesReference
stoichiometry: 1.0
species: 724020

332767
type: SpeciesReference
stoichiometry: 1.0
species: 725660

725660
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.59259259259259
initial amount: NaN
in compartment: 723960

724340
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

725600
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727900
type: Reaction
kinetic law: 334787
product: 334775
reactant: 334763
reactant: 334750
notes: The rates here are so slow I do not know if we should even bother with this enz reacn. These numbers are from Liu and Storm. Other refs suggest that the Km stays the same but the Vmax goes to 10% of the CaM stim levels. Prev: k1=2.2e-9, k2 = 0.0052, k3 = 0.0013 New : k1=5.7e-8, k2=.136, k3=.034
fast: false
reversible: true

334787
type: KineticLaw
local parameters: 958646
local parameters: 958644
notes: k1*PP1_slash_I1_star_*CaNAB_minus_Ca4-k2*CaNAB_minus_Ca4_slash_dephosph_inhib1_noCaM_slash_dephosph_inhib1_noCaM_cplx

958646
type: LocalParameter
units: 331247
value: 1.224E-17

958644
type: LocalParameter
units: 331331
value: 3.0779838E-18

334775
type: SpeciesReference
stoichiometry: 1.0
species: 724740

724740
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

334763
type: SpeciesReference
stoichiometry: 1.0
species: 724720

334750
type: SpeciesReference
stoichiometry: 1.0
species: 724560

728400
type: Reaction
kinetic law: 336001
product: 335989
product: 335977
reactant: 335965
fast: false
reversible: false

336001
type: KineticLaw
local parameters: 958702
notes: k3*CaM_Ca_n_minus_CaNAB_slash_dephosph_inhib1_PSD_slash_dephosph_inhib1_PSD_cplx

958702
type: LocalParameter
units: 331247
value: 3.06E-17

335989
type: SpeciesReference
stoichiometry: 1.0
species: 725280

335977
type: SpeciesReference
stoichiometry: 1.0
species: 725060

725060
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 4.0
initial amount: NaN
in compartment: 723980

335965
type: SpeciesReference
stoichiometry: 1.0
species: 725340

726780
type: Reaction
kinetic law: 332162
product: 332150
product: 332138
reactant: 332126
notes: Rates set by the translocation experiments of Shen and Meyer, Science 1999.
fast: false
reversible: true

332162
type: KineticLaw
local parameters: 958522
local parameters: 958520
notes: kf*CaMKII_minus_PSD-kb*CaMKII_slash_CaMKII*NMDAR

958522
type: LocalParameter
units: 331331
value: 5.4E-21

958520
type: LocalParameter
units: 331247
value: 3.0E-18

332150
type: SpeciesReference
stoichiometry: 1.0
species: 725260

725260
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 120.0
initial amount: NaN
in compartment: 723980

332138
type: SpeciesReference
stoichiometry: 1.0
species: 724260

332126
type: SpeciesReference
stoichiometry: 1.0
species: 724880

728440
type: Reaction
kinetic law: 336099
product: 336087
product: 336075
reactant: 336063
fast: false
reversible: false

336099
type: KineticLaw
local parameters: 958707
notes: k3*CaM_Ca_n_minus_CaNAB_slash_dephosph_minus_PP1_minus_I_star__PSD_slash_dephosph_minus_PP1_minus_I_star__PSD_cplx

958707
type: LocalParameter
units: 331247
value: 3.06E-17

336087
type: SpeciesReference
stoichiometry: 1.0
species: 725280

336075
type: SpeciesReference
stoichiometry: 1.0
species: 725120

725120
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

336063
type: SpeciesReference
stoichiometry: 1.0
species: 725360

725360
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

728680
type: Reaction
kinetic law: 336680
product: 336668
product: 336655
reactant: 336642
fast: false
reversible: false

336680
type: KineticLaw
local parameters: 958736
notes: k3*AC_slash_cAMP_minus_PDE_star__slash_PDE_star__slash_PDE_star__cplx

958736
type: LocalParameter
units: 331247
value: 1.8E-15

336668
type: SpeciesReference
stoichiometry: 1.0
species: 725620

725620
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

336655
type: SpeciesReference
stoichiometry: 1.0
species: 725560

725560
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

336642
type: SpeciesReference
stoichiometry: 1.0
species: 725640

728260
type: Reaction
kinetic law: 335662
product: 335649
reactant: 335637
reactant: 335625
fast: false
reversible: true

335662
type: KineticLaw
local parameters: 958688
local parameters: 958687
notes: k1*CaMKII_minus_thr305_minus_PSD*PP1_minus_active_PSD-k2*PP1_minus_active_PSD_slash_Deph_minus_thr305a_slash_Deph_minus_thr305a_cplx

958688
type: LocalParameter
units: 331247
value: 8.0E-18

958687
type: LocalParameter
units: 331331
value: 4.99998E-18

335649
type: SpeciesReference
stoichiometry: 1.0
species: 725240

725240
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

335637
type: SpeciesReference
stoichiometry: 1.0
species: 725140

335625
type: SpeciesReference
stoichiometry: 1.0
species: 725980

725980
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

727960
type: Reaction
kinetic law: 334933
product: 334920
product: 334907
reactant: 334895
fast: false
reversible: false

334933
type: KineticLaw
local parameters: 958652
notes: k3*CaNAB_minus_Ca4_slash_dephosph_inhib1_noCaM_PSD_slash_dephosph_inhib1_noCaM_PSD_cplx

958652
type: LocalParameter
units: 331247
value: 3.06E-18

334920
type: SpeciesReference
stoichiometry: 1.0
species: 724720

334907
type: SpeciesReference
stoichiometry: 1.0
species: 725060

334895
type: SpeciesReference
stoichiometry: 1.0
species: 724760

724760
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727380
type: Reaction
kinetic law: 333526
product: 333514
reactant: 333502
reactant: 333490
fast: false
reversible: true

333526
type: KineticLaw
local parameters: 958581
local parameters: 958580
notes: k1*CaMKII_slash_CaMKII_star__star__star_*PP1_minus_active-k2*PP1_minus_active_slash_Deph_minus_thr286c_slash_Deph_minus_thr286c_cplx

958581
type: LocalParameter
units: 331247
value: 9.0E-16

958580
type: LocalParameter
units: 331331
value: 2.2062942E-16

333514
type: SpeciesReference
stoichiometry: 1.0
species: 724120

724120
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

333502
type: SpeciesReference
stoichiometry: 1.0
species: 724040

333490
type: SpeciesReference
stoichiometry: 1.0
species: 724320

724320
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

725780
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

726000
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: 2.0
initial amount: NaN
in compartment: 723960

728280
type: Reaction
kinetic law: 335710
product: 335698
product: 335686
reactant: 335674
fast: false
reversible: false

335710
type: KineticLaw
local parameters: 958689
notes: k3*PP1_minus_active_PSD_slash_Deph_minus_thr305a_slash_Deph_minus_thr305a_cplx

958689
type: LocalParameter
units: 331247
value: 2.0E-18

335698
type: SpeciesReference
stoichiometry: 1.0
species: 725140

335686
type: SpeciesReference
stoichiometry: 1.0
species: 724880

335674
type: SpeciesReference
stoichiometry: 1.0
species: 725240

726900
type: Reaction
kinetic law: 332441
product: 332429
reactant: 332417
reactant: 332405
notes: Use K3 = 21.5 uM here from Stemmer and Klee table 3. kb/kf =21.5 * 6e5 so kf = 7.75e-7, kb = 10
fast: false
reversible: true

332441
type: KineticLaw
local parameters: 958534
local parameters: 958533
notes: kf*CaM_minus_Ca3*Ca-kb*CaM_minus_Ca4

958534
type: LocalParameter
units: 331247
value: 9.0E-16

958533
type: LocalParameter
units: 331331
value: 4.1849946E-17

332429
type: SpeciesReference
stoichiometry: 1.0
species: 724020

332417
type: SpeciesReference
stoichiometry: 1.0
species: 724160

332405
type: SpeciesReference
stoichiometry: 1.0
species: 724500

727400
type: Reaction
kinetic law: 333575
product: 333563
product: 333550
reactant: 333538
fast: false
reversible: false

333575
type: KineticLaw
local parameters: 958582
notes: k3*PP1_minus_active_slash_Deph_minus_thr286c_slash_Deph_minus_thr286c_cplx

958582
type: LocalParameter
units: 331247
value: 2.25E-16

333563
type: SpeciesReference
stoichiometry: 1.0
species: 724040

333550
type: SpeciesReference
stoichiometry: 1.0
species: 724440

333538
type: SpeciesReference
stoichiometry: 1.0
species: 724120

727520
type: Reaction
kinetic law: 333865
product: 333853
product: 333841
reactant: 333829
fast: false
reversible: false

333865
type: KineticLaw
local parameters: 958597
notes: k3*PKA_minus_active_slash_PKA_minus_phosph_minus_I1_PSD_slash_PKA_minus_phosph_minus_I1_PSD_cplx

958597
type: LocalParameter
units: 331247
value: 8.1E-16

333853
type: SpeciesReference
stoichiometry: 1.0
species: 724180

333841
type: SpeciesReference
stoichiometry: 1.0
species: 725080

333829
type: SpeciesReference
stoichiometry: 1.0
species: 724220

724220
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727980
type: Reaction
kinetic law: 334981
product: 334969
reactant: 334957
reactant: 334945
fast: false
reversible: true

334981
type: KineticLaw
local parameters: 958656
local parameters: 958654
notes: k1*CaMKII_minus_thr286_minus_PSD*tot_minus_auto_minus_PSD-k2*tot_minus_auto_minus_PSD_slash_auton_minus_305_minus_PSD_slash_auton_minus_305_minus_PSD_cplx

958656
type: LocalParameter
units: 331247
value: 2.4E-16

958654
type: LocalParameter
units: 331331
value: 6.0E-19

334969
type: SpeciesReference
stoichiometry: 1.0
species: 724920

334957
type: SpeciesReference
stoichiometry: 1.0
species: 726160

334945
type: SpeciesReference
stoichiometry: 1.0
species: 724860

728300
type: Reaction
kinetic law: 335758
product: 335746
reactant: 335734
reactant: 335722
fast: false
reversible: true

335758
type: KineticLaw
local parameters: 958691
local parameters: 958690
notes: k1*PP1_slash_I1_star_*CaM_Ca_n_minus_CaNAB-k2*CaM_Ca_n_minus_CaNAB_slash_dephosph_inhib1_slash_dephosph_inhib1_cplx

958691
type: LocalParameter
units: 331247
value: 1.224E-16

958690
type: LocalParameter
units: 331331
value: 3.0779838E-17

335746
type: SpeciesReference
stoichiometry: 1.0
species: 725300

725300
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

335734
type: SpeciesReference
stoichiometry: 1.0
species: 725280

335722
type: SpeciesReference
stoichiometry: 1.0
species: 724560

726040
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: 0.08
initial amount: NaN
in compartment: 723980

725840
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

726800
type: Reaction
kinetic law: 332211
product: 332199
product: 332187
reactant: 332174
notes: Same as for back_1
fast: false
reversible: true

332211
type: KineticLaw
local parameters: 958524
local parameters: 958523
notes: kf*CaMKII_minus_thr305_minus_PSD-kb*CaMKII_slash_CaMK_minus_thr305*NMDAR

958524
type: LocalParameter
units: 331331
value: 5.4E-21

958523
type: LocalParameter
units: 331247
value: 3.0E-18

332199
type: SpeciesReference
stoichiometry: 1.0
species: 725260

332187
type: SpeciesReference
stoichiometry: 1.0
species: 724440

332174
type: SpeciesReference
stoichiometry: 1.0
species: 725980

726120
type: Species
constant: false
boundary condition: true
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727000
type: Reaction
kinetic law: 332635
product: 332623
reactant: 332611
fast: false
reversible: true

332635
type: KineticLaw
local parameters: 958545
local parameters: 958544
notes: kf*PKC_minus_control-kb*PKC_minus_active

958545
type: LocalParameter
units: 331247
value: 2.25E-16

958544
type: LocalParameter
units: 331247
value: 2.25E-16

332623
type: SpeciesReference
stoichiometry: 1.0
species: 725940

725940
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.1
initial amount: NaN
in compartment: 723960

332611
type: SpeciesReference
stoichiometry: 1.0
species: 726100

724360
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 6.3262962962963E-11
initial amount: NaN
in compartment: 723960

724980
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

725160
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

727680
type: Reaction
kinetic law: 334252
product: 334240
product: 334228
reactant: 334215
fast: false
reversible: false

334252
type: KineticLaw
local parameters: 958617
notes: k3*CaMKII_slash_tot_autonomous_CaMKII_slash_auton_305_slash_auton_305_cplx

958617
type: LocalParameter
units: 331247
value: 5.4E-16

334240
type: SpeciesReference
stoichiometry: 1.0
species: 726140

726140
type: Species
constant: false
boundary condition: true
has only substance units: false
initial concentration: 2.0
initial amount: NaN
in compartment: 723960

334228
type: SpeciesReference
stoichiometry: 1.0
species: 724320

334215
type: SpeciesReference
stoichiometry: 1.0
species: 724400

724400
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 4.90055555555556E-8
initial amount: NaN
in compartment: 723960

725900
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.259259259259259
initial amount: NaN
in compartment: 723960

726960
type: Reaction
kinetic law: 332563
product: 332551
reactant: 332539
fast: false
reversible: true

332563
type: KineticLaw
local parameters: 958541
local parameters: 958540
notes: kf*Ca_control_PSD-kb*Ca_minus_PSD

958541
type: LocalParameter
units: 331247
value: 1.0E-15

958540
type: LocalParameter
units: 331247
value: 1.0E-15

332551
type: SpeciesReference
stoichiometry: 1.0
species: 725040

725040
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.08
initial amount: NaN
in compartment: 723980

332539
type: SpeciesReference
stoichiometry: 1.0
species: 726040

725520
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727280
type: Reaction
kinetic law: 333277
product: 333265
product: 333253
reactant: 333240
fast: false
reversible: false

333277
type: KineticLaw
local parameters: 958573
notes: k3*PP1_minus_active_slash_Deph_minus_thr286_slash_Deph_minus_thr286_cplx

958573
type: LocalParameter
units: 331247
value: 2.25E-16

333265
type: SpeciesReference
stoichiometry: 1.0
species: 724040

333253
type: SpeciesReference
stoichiometry: 1.0
species: 724280

724280
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

333240
type: SpeciesReference
stoichiometry: 1.0
species: 724060

724060
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

728600
type: Reaction
kinetic law: 336485
modifier: 336473
product: 336461
reactant: 336449
notes: Reduced Km to match expt data for basal activation of AC2 by PKC. Now k1 = 2.9e-6, k2 = 72, k3 = 18 18 Feb: Raised Km to 300 based on BRENDA data. Unlikely to make much difference, given the vast amount of ATP.
fast: false
reversible: false

336485
type: KineticLaw
local parameters: 958728
local parameters: 958727
notes: kcat*AC_slash_AC2_star_*AC_slash_ATP/(Km+AC_slash_ATP)

958728
type: LocalParameter
units: 331210
value: 300.001920012288

958727
type: LocalParameter
units: 331247
value: 1.8E-16

336461
type: SpeciesReference
stoichiometry: 1.0
species: 725460

336449
type: SpeciesReference
stoichiometry: 1.0
species: 726080

727740
type: Reaction
kinetic law: 334396
product: 334384
reactant: 334372
reactant: 334360
notes: PP2A does most of the dephosph of I1 at basal Ca levels. See the review by Cohen in Ann Rev Biochem 1989. For now, lets halve Km. k1 was 3.3e-6, now 6.6e-6
fast: false
reversible: true

334396
type: KineticLaw
local parameters: 958626
local parameters: 958624
notes: k1*PP1_slash_I1_star_*PP2A-k2*PP2A_slash_PP2A_minus_dephosph_minus_I1_slash_PP2A_minus_dephosph_minus_I1_cplx

958626
type: LocalParameter
units: 331247
value: 7.50006E-16

958624
type: LocalParameter
units: 331331
value: 5.81256E-17

334384
type: SpeciesReference
stoichiometry: 1.0
species: 724640

724640
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.99333333333333E-6
initial amount: NaN
in compartment: 723960

334372
type: SpeciesReference
stoichiometry: 1.0
species: 724620

334360
type: SpeciesReference
stoichiometry: 1.0
species: 724560

726260
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.0
initial amount: NaN
in compartment: 723960

728360
type: Reaction
kinetic law: 335905
product: 335893
product: 335880
reactant: 335868
fast: false
reversible: false

335905
type: KineticLaw
local parameters: 958697
notes: k3*CaM_Ca_n_minus_CaNAB_slash_dephosph_minus_PP1_minus_I_star__slash_dephosph_minus_PP1_minus_I_star__cplx

958697
type: LocalParameter
units: 331247
value: 3.06E-17

335893
type: SpeciesReference
stoichiometry: 1.0
species: 725280

335880
type: SpeciesReference
stoichiometry: 1.0
species: 724600

335868
type: SpeciesReference
stoichiometry: 1.0
species: 725320

725320
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

726520
type: Reaction
kinetic law: 331537
product: 331525
reactant: 331513
reactant: 331501
notes: Lets use the fast rate consts here. Since the rates are so different, I am not sure whether the order is relevant. These correspond to the TR2C fragment. We use the Martin et al rates here, plus the Drabicowski binding consts. All are scaled by 3X to cell temp. kf = 2e-10 kb = 72 Stemmer & Klee: K1=.9, K2=1.1. Assume 1.0uM for both. kb/kf=3.6e11. If kb=72, kf = 2e-10 (Exactly the same !)....
fast: false
reversible: true

331537
type: KineticLaw
local parameters: 958494
local parameters: 958493
notes: kf*CaM_slash_CaM*Ca^2-kb*CaM_minus_TR2_minus_Ca2

958494
type: LocalParameter
units: 331247
value: 6.48E-15

958493
type: LocalParameter
units: 331283
value: 6.47990604E-15

331525
type: SpeciesReference
stoichiometry: 1.0
species: 724520

331513
type: SpeciesReference
stoichiometry: 2.0
species: 724160

331501
type: SpeciesReference
stoichiometry: 1.0
species: 724460

724460
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 26.3333333333333
initial amount: NaN
in compartment: 723960

726860
type: Reaction
kinetic law: 332343
product: 332331
product: 332319
reactant: 332307
notes: Let us assume that the equil in this case is very far over to the right. This is probably safe.
fast: false
reversible: true

332343
type: KineticLaw
local parameters: 958530
local parameters: 958529
notes: kf*PP1_PSD_slash_PP1_minus_I1-kb*PP1_PSD_slash_I1*PP1_minus_active_PSD

958530
type: LocalParameter
units: 331331
value: 0.0

958529
type: LocalParameter
units: 331247
value: 1.0E-17

332331
type: SpeciesReference
stoichiometry: 1.0
species: 725140

332319
type: SpeciesReference
stoichiometry: 1.0
species: 725060

332307
type: SpeciesReference
stoichiometry: 1.0
species: 725120

727300
type: Reaction
kinetic law: 333325
product: 333313
reactant: 333301
reactant: 333289
fast: false
reversible: true

333325
type: KineticLaw
local parameters: 958575
local parameters: 958574
notes: k1*CaMKII_slash_CaMKII_minus_thr286*PP1_minus_active-k2*PP1_minus_active_slash_Deph_minus_thr286b_slash_Deph_minus_thr286b_cplx

958575
type: LocalParameter
units: 331247
value: 9.0E-16

958574
type: LocalParameter
units: 331331
value: 2.2062942E-16

333313
type: SpeciesReference
stoichiometry: 1.0
species: 724080

333301
type: SpeciesReference
stoichiometry: 1.0
species: 724040

333289
type: SpeciesReference
stoichiometry: 1.0
species: 724340

727760
type: Reaction
kinetic law: 334445
product: 334433
product: 334420
reactant: 334408
fast: false
reversible: false

334445
type: KineticLaw
local parameters: 958627
notes: k3*PP2A_slash_PP2A_minus_dephosph_minus_I1_slash_PP2A_minus_dephosph_minus_I1_cplx

958627
type: LocalParameter
units: 331247
value: 1.8E-16

334433
type: SpeciesReference
stoichiometry: 1.0
species: 724620

334420
type: SpeciesReference
stoichiometry: 1.0
species: 724540

334408
type: SpeciesReference
stoichiometry: 1.0
species: 724640

728200
type: Reaction
kinetic law: 335515
product: 335502
product: 335490
reactant: 335478
fast: false
reversible: false

335515
type: KineticLaw
local parameters: 958683
notes: k3*PP1_minus_active_PSD_slash_Deph_minus_thr305_slash_Deph_minus_thr305_cplx

958683
type: LocalParameter
units: 331247
value: 2.0E-18

335502
type: SpeciesReference
stoichiometry: 1.0
species: 725140

335490
type: SpeciesReference
stoichiometry: 1.0
species: 724860

335478
type: SpeciesReference
stoichiometry: 1.0
species: 725200

725200
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

728180
type: Reaction
kinetic law: 335466
product: 335454
reactant: 335442
reactant: 335430
fast: false
reversible: true

335466
type: KineticLaw
local parameters: 958681
local parameters: 958679
notes: k1*CaMKII_star__star__star__minus_PSD*PP1_minus_active_PSD-k2*PP1_minus_active_PSD_slash_Deph_minus_thr305_slash_Deph_minus_thr305_cplx

958681
type: LocalParameter
units: 331247
value: 8.0E-18

958679
type: LocalParameter
units: 331331
value: 4.99998E-18

335454
type: SpeciesReference
stoichiometry: 1.0
species: 725200

335442
type: SpeciesReference
stoichiometry: 1.0
species: 725140

335430
type: SpeciesReference
stoichiometry: 1.0
species: 724900

724900
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

726020
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: 0.08
initial amount: NaN
in compartment: 723960

724660
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.00691
initial amount: NaN
in compartment: 723960

726680
type: Reaction
kinetic law: 331922
product: 331910
reactant: 331898
reactant: 331886
notes: going on the experience with CaM, we put the fast (high affinity) sites first. We only know (Stemmer and Klee) that the affinity is < 70 nM. Assuming 10 nM at first, we get kf = 2.78e-8, kb = 1. Try 20 nM. kf = 7e-9, kb = 1.
fast: false
reversible: true

331922
type: KineticLaw
local parameters: 958511
local parameters: 958510
notes: kf*PP2B_slash_CaNAB*Ca^2-kb*PP2B_slash_CaNAB_minus_Ca2

958511
type: LocalParameter
units: 331247
value: 9.0E-17

958510
type: LocalParameter
units: 331283
value: 9.00720324E-13

331910
type: SpeciesReference
stoichiometry: 1.0
species: 724800

724800
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

331898
type: SpeciesReference
stoichiometry: 2.0
species: 724160

331886
type: SpeciesReference
stoichiometry: 1.0
species: 724780

724780
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.0
initial amount: NaN
in compartment: 723960

727120
type: Reaction
kinetic law: 332889
product: 332877
reactant: 332865
reactant: 332853
notes: Hasler et al FASEB J 6:2734-2741 1992 say Kd =1e-7M for type II, 5.6e-8 M for type I. Take mean which comes to 2e-13 #/cell Smith et al PNAS USA 78:3 1591-1595 1981 have better data. First kf/kb=2.1e7/M = 3.5e-5 (#/cell). Ogreid and Doskeland Febs Lett 129:2 287-292 1981 have figs suggesting time course of complete assoc is < 1 min.
fast: false
reversible: true

332889
type: KineticLaw
local parameters: 958558
local parameters: 958556
notes: kf*PKA_slash_R2C2*cAMP-kb*PKA_slash_R2C2_minus_cAMP

958558
type: LocalParameter
units: 331247
value: 2.97E-15

958556
type: LocalParameter
units: 331331
value: 4.86E-15

332877
type: SpeciesReference
stoichiometry: 1.0
species: 725780

332865
type: SpeciesReference
stoichiometry: 1.0
species: 725460

332853
type: SpeciesReference
stoichiometry: 1.0
species: 725760

725760
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.5
initial amount: NaN
in compartment: 723960

727580
type: Reaction
kinetic law: 334009
product: 333997
reactant: 333985
reactant: 333973
notes: Rates from autocamtide phosphorylation, from Hanson and Schulman JBC 267:24 17216-17224 1992. Jan 1 1998: Speed up 12x to match fig 5.
fast: false
reversible: true

334009
type: KineticLaw
local parameters: 958606
local parameters: 958604
notes: k1*CaMKII_slash_CaMKII_minus_thr286*CaMKII_slash_tot_CaM_CaMKII-k2*CaMKII_slash_tot_CaM_CaMKII_slash_CaM_act_305_slash_CaM_act_305_cplx

958606
type: LocalParameter
units: 331247
value: 2.16E-15

958604
type: LocalParameter
units: 331331
value: 1.1894364E-17

333997
type: SpeciesReference
stoichiometry: 1.0
species: 724360

333985
type: SpeciesReference
stoichiometry: 1.0
species: 726120

333973
type: SpeciesReference
stoichiometry: 1.0
species: 724340

728660
type: Reaction
kinetic law: 336630
product: 336618
reactant: 336606
reactant: 336594
notes: This form has about twice the activity of the unphosphorylated form. See Sette et al JBC 269:28 18271-18274 1994. We\'ll ignore cGMP effects for now.
fast: false
reversible: true

336630
type: KineticLaw
local parameters: 958735
local parameters: 958733
notes: k1*cAMP*AC_slash_cAMP_minus_PDE_star_-k2*AC_slash_cAMP_minus_PDE_star__slash_PDE_star__slash_PDE_star__cplx

958735
type: LocalParameter
units: 331247
value: 7.2E-15

958733
type: LocalParameter
units: 331331
value: 4.5359838E-16

336618
type: SpeciesReference
stoichiometry: 1.0
species: 725640

336606
type: SpeciesReference
stoichiometry: 1.0
species: 725620

336594
type: SpeciesReference
stoichiometry: 1.0
species: 725460

725880
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727140
type: Reaction
kinetic law: 332937
product: 332925
reactant: 332913
reactant: 332901
notes: For now let us set this to the same Km (1e-7M) as site B. This gives kf/kb = .7e-7M * 1e6 / (6e5^2) : 1/(6e5^2) = 2e-13:2.77e-12 Smith et al have better values. They say that this is cooperative, so the consts are now kf/kb =8.3e-4
fast: false
reversible: true

332937
type: KineticLaw
local parameters: 958560
local parameters: 958559
notes: kf*PKA_slash_R2C2_minus_cAMP*cAMP-kb*PKA_slash_R2C2_minus_cAMP2

958560
type: LocalParameter
units: 331247
value: 2.97E-15

958559
type: LocalParameter
units: 331331
value: 4.86E-15

332925
type: SpeciesReference
stoichiometry: 1.0
species: 725800

332913
type: SpeciesReference
stoichiometry: 1.0
species: 725460

332901
type: SpeciesReference
stoichiometry: 1.0
species: 725780

728720
type: Reaction
kinetic law: 336776
product: 336764
product: 336752
reactant: 336740
fast: false
reversible: false

336776
type: KineticLaw
local parameters: 958741
notes: k3*AC_slash_PDE1_slash_PDE1_slash_PDE1_cplx

958741
type: LocalParameter
units: 331247
value: 1.5003E-16

336764
type: SpeciesReference
stoichiometry: 1.0
species: 725660

336752
type: SpeciesReference
stoichiometry: 1.0
species: 725560

336740
type: SpeciesReference
stoichiometry: 1.0
species: 725680

725680
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727600
type: Reaction
kinetic law: 334057
product: 334045
product: 334033
reactant: 334021
fast: false
reversible: false

334057
type: KineticLaw
local parameters: 958607
notes: k3*CaMKII_slash_tot_CaM_CaMKII_slash_CaM_act_305_slash_CaM_act_305_cplx

958607
type: LocalParameter
units: 331247
value: 5.4E-16

334045
type: SpeciesReference
stoichiometry: 1.0
species: 726120

334033
type: SpeciesReference
stoichiometry: 1.0
species: 724320

334021
type: SpeciesReference
stoichiometry: 1.0
species: 724360

727060
type: Reaction
kinetic law: 332755
product: 332743
reactant: 332731
notes: The rates for this are poorly constrained. In adipocytes (probably a different PDE) the dephosphorylation is complete within 15 min, but there are no intermediate time points so it could be much faster. Identity of phosphatase etc is still unknown.
fast: false
reversible: true

332755
type: KineticLaw
local parameters: 958551
local parameters: 958550
notes: kf*AC_slash_cAMP_minus_PDE_star_-kb*AC_slash_cAMP_minus_PDE

958551
type: LocalParameter
units: 331247
value: 0.0

958550
type: LocalParameter
units: 331247
value: 9.0E-19

332743
type: SpeciesReference
stoichiometry: 1.0
species: 725580

332731
type: SpeciesReference
stoichiometry: 1.0
species: 725620

726760
type: Reaction
kinetic law: 332114
product: 332102
reactant: 332090
reactant: 332078
notes: Same as for transloc_1
fast: false
reversible: true

332114
type: KineticLaw
local parameters: 958519
local parameters: 958518
notes: kf*CaMKII_slash_CaMKII_minus_thr286_star__minus_CaM*NMDAR-kb*CaMKII_minus_thr286_minus_CaM_minus_PSD

958519
type: LocalParameter
units: 331247
value: 0.0

958518
type: LocalParameter
units: 331331
value: 1.08E-20

332102
type: SpeciesReference
stoichiometry: 1.0
species: 724820

332090
type: SpeciesReference
stoichiometry: 1.0
species: 725260

332078
type: SpeciesReference
stoichiometry: 1.0
species: 724300

724300
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727840
type: Reaction
kinetic law: 334640
product: 334627
product: 334615
reactant: 334603
fast: false
reversible: false

334640
type: KineticLaw
local parameters: 958637
notes: k3*PP2A_slash_PP2A_minus_dephosph_minus_I1_PSD_slash_PP2A_minus_dephosph_minus_I1_PSD_cplx

958637
type: LocalParameter
units: 331247
value: 1.8E-16

334627
type: SpeciesReference
stoichiometry: 1.0
species: 724620

334615
type: SpeciesReference
stoichiometry: 1.0
species: 725060

334603
type: SpeciesReference
stoichiometry: 1.0
species: 724680

724680
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.21555555555556E-7
initial amount: NaN
in compartment: 723960

726180
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

728740
type: Reaction
kinetic law: 336824
product: 336812
reactant: 336800
reactant: 336788
notes: Max activity ~10umol/min/mg in presence of lots of CaM. Affinity is low, 40 uM. k3 = 10, k2 = 40, k1 = (50/40) / 6e5.
fast: false
reversible: true

336824
type: KineticLaw
local parameters: 958745
local parameters: 958743
notes: k1*cAMP*AC_slash_CaM_dot_PDE1-k2*AC_slash_CaM_dot_PDE1_slash_CaM_dot_PDE1_slash_CaM_dot_PDE1_cplx

958745
type: LocalParameter
units: 331247
value: 3.6E-15

958743
type: LocalParameter
units: 331331
value: 1.1339838E-16

336812
type: SpeciesReference
stoichiometry: 1.0
species: 725720

725720
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

336800
type: SpeciesReference
stoichiometry: 1.0
species: 725700

336788
type: SpeciesReference
stoichiometry: 1.0
species: 725460

727660
type: Reaction
kinetic law: 334203
product: 334191
reactant: 334179
reactant: 334166
notes: See Hanson and Schulman again, for afterburst rates of phosph.
fast: false
reversible: true

334203
type: KineticLaw
local parameters: 958616
local parameters: 958614
notes: k1*CaMKII_slash_CaMKII_minus_thr286*CaMKII_slash_tot_autonomous_CaMKII-k2*CaMKII_slash_tot_autonomous_CaMKII_slash_auton_305_slash_auton_305_cplx

958616
type: LocalParameter
units: 331247
value: 2.16E-15

958614
type: LocalParameter
units: 331331
value: 7.714278E-18

334191
type: SpeciesReference
stoichiometry: 1.0
species: 724400

334179
type: SpeciesReference
stoichiometry: 1.0
species: 726140

334166
type: SpeciesReference
stoichiometry: 1.0
species: 724340

728100
type: Reaction
kinetic law: 335272
product: 335260
reactant: 335248
reactant: 335236
fast: false
reversible: true

335272
type: KineticLaw
local parameters: 958671
local parameters: 958669
notes: k1*CaMKII_minus_thr286_minus_CaM_minus_PSD*PP1_minus_active_PSD-k2*PP1_minus_active_PSD_slash_Deph_minus_thr286_slash_Deph_minus_thr286_cplx

958671
type: LocalParameter
units: 331247
value: 8.0E-18

958669
type: LocalParameter
units: 331331
value: 4.99998E-18

335260
type: SpeciesReference
stoichiometry: 1.0
species: 725160

335248
type: SpeciesReference
stoichiometry: 1.0
species: 725140

335236
type: SpeciesReference
stoichiometry: 1.0
species: 724820

728560
type: Reaction
kinetic law: 336389
product: 336377
product: 336365
reactant: 336353
fast: false
reversible: false

336389
type: KineticLaw
local parameters: 958722
notes: k3*tot_minus_CaM_minus_CaMKII_minus_PSD_slash_CaM_act_autoph_slash_CaM_act_autoph_cplx

958722
type: LocalParameter
units: 331247
value: 2.0E-17

336377
type: SpeciesReference
stoichiometry: 1.0
species: 726280

336365
type: SpeciesReference
stoichiometry: 1.0
species: 724860

336353
type: SpeciesReference
stoichiometry: 1.0
species: 725440

725440
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

726600
type: Reaction
kinetic law: 331730
product: 331718
reactant: 331706
reactant: 331694
notes: Use K3 = 21.5 uM here from Stemmer and Klee table 3. kb/kf =21.5 * 6e5 so kf = 7.75e-7, kb = 10
fast: false
reversible: true

331730
type: KineticLaw
local parameters: 958503
local parameters: 958501
notes: kf*CaM_minus_Ca3_minus_PSD*Ca_minus_PSD-kb*CaM_minus_Ca4_minus_PSD

958503
type: LocalParameter
units: 331247
value: 1.0E-16

958501
type: LocalParameter
units: 331331
value: 4.65012E-18

331718
type: SpeciesReference
stoichiometry: 1.0
species: 725020

331706
type: SpeciesReference
stoichiometry: 1.0
species: 725040

331694
type: SpeciesReference
stoichiometry: 1.0
species: 725000

727220
type: Reaction
kinetic law: 333130
product: 333118
product: 333106
reactant: 333094
fast: false
reversible: true

333130
type: KineticLaw
local parameters: 958568
local parameters: 958567
notes: kf*PKA_slash_R2C_minus_cAMP4-kb*PKA_minus_active*PKA_slash_R2_minus_cAMP4

958568
type: LocalParameter
units: 331331
value: 1.6199838E-15

958567
type: LocalParameter
units: 331247
value: 5.4E-15

333118
type: SpeciesReference
stoichiometry: 1.0
species: 725880

333106
type: SpeciesReference
stoichiometry: 1.0
species: 724180

333094
type: SpeciesReference
stoichiometry: 1.0
species: 725860

725860
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

727500
type: Reaction
kinetic law: 333816
product: 333804
reactant: 333792
reactant: 333780
fast: false
reversible: true

333816
type: KineticLaw
local parameters: 958596
local parameters: 958594
notes: k1*PP1_PSD_slash_I1*PKA_minus_active-k2*PKA_minus_active_slash_PKA_minus_phosph_minus_I1_PSD_slash_PKA_minus_phosph_minus_I1_PSD_cplx

958596
type: LocalParameter
units: 331247
value: 3.24E-15

958594
type: LocalParameter
units: 331331
value: 5.99994E-17

333804
type: SpeciesReference
stoichiometry: 1.0
species: 724220

333792
type: SpeciesReference
stoichiometry: 1.0
species: 724180

333780
type: SpeciesReference
stoichiometry: 1.0
species: 725060

727260
type: Reaction
kinetic law: 333228
product: 333216
reactant: 333204
reactant: 333192
fast: false
reversible: true

333228
type: KineticLaw
local parameters: 958572
local parameters: 958571
notes: k1*CaMKII_slash_CaMKII_minus_thr286_star__minus_CaM*PP1_minus_active-k2*PP1_minus_active_slash_Deph_minus_thr286_slash_Deph_minus_thr286_cplx

958572
type: LocalParameter
units: 331247
value: 9.0E-16

958571
type: LocalParameter
units: 331331
value: 2.2062942E-16

333216
type: SpeciesReference
stoichiometry: 1.0
species: 724060

333204
type: SpeciesReference
stoichiometry: 1.0
species: 724040

333192
type: SpeciesReference
stoichiometry: 1.0
species: 724300

726480
type: Reaction
kinetic law: 331441
product: 331428
reactant: 331416
reactant: 331404
notes: This is tricky. There is some cooperativity here arising from interactions between the subunits of the CAMKII holoenzyme. However, the stoichiometry is 1. Kb/Kf = 6e4 #/cell. Rate is fast (see Hanson et al Neuron 12 943-956 1994) so lets say kb = 10. This gives kf = 1.6667e-4 H&S AnnRev Biochem 92 give tau for dissoc as 0.2 sec at low Ca, 0.4 at high. Low Ca = 100 nM = physiol.
fast: false
reversible: true

331441
type: KineticLaw
local parameters: 958490
local parameters: 958489
notes: kf*CaM_minus_Ca4*CaMKII_slash_CaMKII-kb*CaMKII_slash_CaMKII_minus_CaM

958490
type: LocalParameter
units: 331247
value: 4.5E-16

958489
type: LocalParameter
units: 331331
value: 4.4999712E-15

331428
type: SpeciesReference
stoichiometry: 1.0
species: 724280

331416
type: SpeciesReference
stoichiometry: 1.0
species: 724260

331404
type: SpeciesReference
stoichiometry: 1.0
species: 724020

728120
type: Reaction
kinetic law: 335321
product: 335308
product: 335296
reactant: 335284
fast: false
reversible: false

335321
type: KineticLaw
local parameters: 958672
notes: k3*PP1_minus_active_PSD_slash_Deph_minus_thr286_slash_Deph_minus_thr286_cplx

958672
type: LocalParameter
units: 331247
value: 2.0E-18

335308
type: SpeciesReference
stoichiometry: 1.0
species: 725140

335296
type: SpeciesReference
stoichiometry: 1.0
species: 724840

335284
type: SpeciesReference
stoichiometry: 1.0
species: 725160

728040
type: Reaction
kinetic law: 335127
product: 335115
product: 335103
reactant: 335091
fast: false
reversible: false

335127
type: KineticLaw
local parameters: 958662
notes: k3*tot_minus_auto_minus_PSD_slash_auton_minus_286_minus_PSD_slash_auton_minus_286_minus_PSD_cplx

958662
type: LocalParameter
units: 331247
value: 5.0E-18

335115
type: SpeciesReference
stoichiometry: 1.0
species: 726160

335103
type: SpeciesReference
stoichiometry: 1.0
species: 724820

335091
type: SpeciesReference
stoichiometry: 1.0
species: 724940

726620
type: Reaction
kinetic law: 331778
product: 331766
reactant: 331754
reactant: 331742
notes: K inhib = 1nM from Cohen Ann Rev Bioch 1989, 4 nM from Foukes et al Assume 2 nM. kf /kb = 8.333e-4
fast: false
reversible: true

331778
type: KineticLaw
local parameters: 958505
local parameters: 958504
notes: kf*PP1_slash_I1_star_*PP1_minus_active-kb*PP1_slash_PP1_minus_I1_star_

958505
type: LocalParameter
units: 331247
value: 9.0E-18

958504
type: LocalParameter
units: 331331
value: 4.4998254E-14

331766
type: SpeciesReference
stoichiometry: 1.0
species: 724580

724580
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

331754
type: SpeciesReference
stoichiometry: 1.0
species: 724040

331742
type: SpeciesReference
stoichiometry: 1.0
species: 724560

728060
type: Reaction
kinetic law: 335175
product: 335163
reactant: 335151
reactant: 335139
fast: false
reversible: true

335175
type: KineticLaw
local parameters: 958666
local parameters: 958664
notes: k1*CaMKII_minus_PSD*tot_minus_auto_minus_PSD-k2*tot_minus_auto_minus_PSD_slash_auton_minus_autoph_slash_auton_minus_autoph_cplx

958666
type: LocalParameter
units: 331247
value: 8.0E-17

958664
type: LocalParameter
units: 331331
value: 1.99998E-19

335163
type: SpeciesReference
stoichiometry: 1.0
species: 724960

335151
type: SpeciesReference
stoichiometry: 1.0
species: 726160

335139
type: SpeciesReference
stoichiometry: 1.0
species: 724880

726200
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.0
initial amount: NaN
in compartment: 723980

727440
type: Reaction
kinetic law: 333672
product: 333660
product: 333648
reactant: 333636
fast: false
reversible: false

333672
type: KineticLaw
local parameters: 958587
notes: k3*PP1_minus_active_slash_Deph_minus_thr305a_slash_Deph_minus_thr305a_cplx

958587
type: LocalParameter
units: 331247
value: 2.25E-16

333660
type: SpeciesReference
stoichiometry: 1.0
species: 724040

333648
type: SpeciesReference
stoichiometry: 1.0
species: 724260

333636
type: SpeciesReference
stoichiometry: 1.0
species: 724140

727560
type: Reaction
kinetic law: 333961
product: 333949
product: 333937
reactant: 333925
fast: false
reversible: false

333961
type: KineticLaw
local parameters: 958602
notes: k3*PKA_minus_active_slash_phosph_minus_PDE_slash_phosph_minus_PDE_cplx

958602
type: LocalParameter
units: 331247
value: 8.1E-16

333949
type: SpeciesReference
stoichiometry: 1.0
species: 724180

333937
type: SpeciesReference
stoichiometry: 1.0
species: 725620

333925
type: SpeciesReference
stoichiometry: 1.0
species: 724240

728340
type: Reaction
kinetic law: 335856
product: 335844
reactant: 335832
reactant: 335820
fast: false
reversible: true

335856
type: KineticLaw
local parameters: 958696
local parameters: 958694
notes: k1*PP1_slash_PP1_minus_I1_star_*CaM_Ca_n_minus_CaNAB-k2*CaM_Ca_n_minus_CaNAB_slash_dephosph_minus_PP1_minus_I_star__slash_dephosph_minus_PP1_minus_I_star__cplx

958696
type: LocalParameter
units: 331247
value: 1.224E-16

958694
type: LocalParameter
units: 331331
value: 3.0779838E-17

335844
type: SpeciesReference
stoichiometry: 1.0
species: 725320

335832
type: SpeciesReference
stoichiometry: 1.0
species: 725280

335820
type: SpeciesReference
stoichiometry: 1.0
species: 724580

728800
type: Reaction
kinetic law: 336968
product: 336956
product: 336944
reactant: 336932
fast: false
reversible: false

336968
type: KineticLaw
local parameters: 958751
notes: k3*PKC_minus_active_slash_phosph_minus_AC2_slash_phosph_minus_AC2_cplx

958751
type: LocalParameter
units: 331247
value: 3.6E-16

336956
type: SpeciesReference
stoichiometry: 1.0
species: 725940

336944
type: SpeciesReference
stoichiometry: 1.0
species: 725520

336932
type: SpeciesReference
stoichiometry: 1.0
species: 725960

725960
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 4.00703703703704E-5
initial amount: NaN
in compartment: 723960

726840
type: Reaction
kinetic law: 332295
product: 332283
reactant: 332271
notes: Diffusional equilibrium between PSD- and cytosolic compartment. According to D. Bary in Cell Movements 2nd ed 2001 D for proteins is 5e-7 cm^2/s giving 10 ms for a translocation of 1 um.
fast: false
reversible: true

332295
type: KineticLaw
local parameters: 958528
local parameters: 958527
notes: kf*CaM_minus_Ca4_minus_PSD-kb*CaM_minus_Ca4

958528
type: LocalParameter
units: 331247
value: 5.4E-15

958527
type: LocalParameter
units: 331247
value: 5.4E-15

332283
type: SpeciesReference
stoichiometry: 1.0
species: 724020

332271
type: SpeciesReference
stoichiometry: 1.0
species: 725020

727460
type: Reaction
kinetic law: 333720
product: 333708
reactant: 333696
reactant: 333684
notes: #s from Bramson et al CRC crit rev Biochem 15:2 93-124. They have a huge list of peptide substrates and I have chosen high-ish rates. These consts give too much PKA activity, so lower Vmax 1/3. Now, k1 = 3e-5, k2 = 36, k3 = 9 (still pretty fast). Also lower Km 1/3 so k1 = 1e-5 Cohen et al FEBS Lett 76:182-86 1977 say rate =30% PKA act on phosphokinase beta.
fast: false
reversible: true

333720
type: KineticLaw
local parameters: 958591
local parameters: 958589
notes: k1*PP1_slash_I1*PKA_minus_active-k2*PKA_minus_active_slash_PKA_minus_phosph_minus_I1_slash_PKA_minus_phosph_minus_I1_cplx

958591
type: LocalParameter
units: 331247
value: 3.24E-15

958589
type: LocalParameter
units: 331331
value: 5.399946E-16

333708
type: SpeciesReference
stoichiometry: 1.0
species: 724200

333696
type: SpeciesReference
stoichiometry: 1.0
species: 724180

333684
type: SpeciesReference
stoichiometry: 1.0
species: 724540

726740
type: Reaction
kinetic law: 332066
product: 332054
reactant: 332042
reactant: 332030
notes: Rates to match curve in fig2 from Shen and Meyer, Science 284:162-166(1999), calculated for 6:1 alpha:beta CaMKII heterodimers
fast: false
reversible: true

332066
type: KineticLaw
local parameters: 958517
local parameters: 958516
notes: kf*CaMKII_slash_CaMKII_minus_CaM*NMDAR-kb*CaMKII_minus_CaM_minus_PSD

958517
type: LocalParameter
units: 331247
value: 0.0

958516
type: LocalParameter
units: 331331
value: 1.08E-20

332054
type: SpeciesReference
stoichiometry: 1.0
species: 724840

332042
type: SpeciesReference
stoichiometry: 1.0
species: 725260

332030
type: SpeciesReference
stoichiometry: 1.0
species: 724280

728640
type: Reaction
kinetic law: 336582
product: 336569
product: 336557
reactant: 336545
fast: false
reversible: false

336582
type: KineticLaw
local parameters: 958731
notes: k3*AC_slash_cAMP_minus_PDE_slash_PDE_slash_PDE_cplx

958731
type: LocalParameter
units: 331247
value: 9.0E-16

336569
type: SpeciesReference
stoichiometry: 1.0
species: 725580

336557
type: SpeciesReference
stoichiometry: 1.0
species: 725560

336545
type: SpeciesReference
stoichiometry: 1.0
species: 725600

726560
type: Reaction
kinetic law: 331633
product: 331621
reactant: 331609
reactant: 331597
notes: Lets use the fast rate consts here. Since the rates are so different, I am not sure whether the order is relevant. These correspond to the TR2C fragment. We use the Martin et al rates here, plus the Drabicowski binding consts. All are scaled by 3X to cell temp. kf = 2e-10 kb = 72 Stemmer & Klee: K1=.9, K2=1.1. Assume 1.0uM for both. kb/kf=3.6e11. If kb=72, kf = 2e-10 (Exactly the same !)....
fast: false
reversible: true

331633
type: KineticLaw
local parameters: 958498
local parameters: 958497
notes: kf*CaM_slash_CaM_minus_PSD*Ca_minus_PSD^2-kb*CaM_minus_TR2_minus_Ca2_minus_PSD

958498
type: LocalParameter
units: 331247
value: 7.2E-16

958497
type: LocalParameter
units: 331283
value: 7.2E-16

331621
type: SpeciesReference
stoichiometry: 1.0
species: 724980

331609
type: SpeciesReference
stoichiometry: 2.0
species: 725040

331597
type: SpeciesReference
stoichiometry: 1.0
species: 724480

724480
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 26.3333333333333
initial amount: NaN
in compartment: 723980

727920
type: Reaction
kinetic law: 334835
product: 334823
product: 334811
reactant: 334799
fast: false
reversible: false

334835
type: KineticLaw
local parameters: 958647
notes: k3*CaNAB_minus_Ca4_slash_dephosph_inhib1_noCaM_slash_dephosph_inhib1_noCaM_cplx

958647
type: LocalParameter
units: 331247
value: 3.06E-18

334823
type: SpeciesReference
stoichiometry: 1.0
species: 724720

334811
type: SpeciesReference
stoichiometry: 1.0
species: 724540

334799
type: SpeciesReference
stoichiometry: 1.0
species: 724740

728540
type: Reaction
kinetic law: 336341
product: 336329
reactant: 336316
reactant: 336304
fast: false
reversible: true

336341
type: KineticLaw
local parameters: 958721
local parameters: 958719
notes: k1*CaMKII_minus_PSD*tot_minus_CaM_minus_CaMKII_minus_PSD-k2*tot_minus_CaM_minus_CaMKII_minus_PSD_slash_CaM_act_autoph_slash_CaM_act_autoph_cplx

958721
type: LocalParameter
units: 331247
value: 8.0E-17

958719
type: LocalParameter
units: 331331
value: 3.12498E-19

336329
type: SpeciesReference
stoichiometry: 1.0
species: 725440

336316
type: SpeciesReference
stoichiometry: 1.0
species: 726280

336304
type: SpeciesReference
stoichiometry: 1.0
species: 724880

725400
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

726580
type: Reaction
kinetic law: 331682
product: 331670
reactant: 331658
reactant: 331645
notes: K3 = 21.5, K4 = 2.8. Assuming that the K4 step happens first, we get kb/kf = 2.8 uM = 1.68e6 so kf =6e-6 assuming kb = 10
fast: false
reversible: true

331682
type: KineticLaw
local parameters: 958500
local parameters: 958499
notes: kf*CaM_minus_TR2_minus_Ca2_minus_PSD*Ca_minus_PSD-kb*CaM_minus_Ca3_minus_PSD

958500
type: LocalParameter
units: 331247
value: 1.0E-16

958499
type: LocalParameter
units: 331331
value: 3.6E-17

331670
type: SpeciesReference
stoichiometry: 1.0
species: 725000

331658
type: SpeciesReference
stoichiometry: 1.0
species: 725040

331645
type: SpeciesReference
stoichiometry: 1.0
species: 724980

727360
type: Reaction
kinetic law: 333477
product: 333464
product: 333451
reactant: 333438
fast: false
reversible: false

333477
type: KineticLaw
local parameters: 958579
notes: k3*PP1_minus_active_slash_Deph_minus_thr305_slash_Deph_minus_thr305_cplx

958579
type: LocalParameter
units: 331247
value: 2.25E-16

333464
type: SpeciesReference
stoichiometry: 1.0
species: 724040

333451
type: SpeciesReference
stoichiometry: 1.0
species: 724340

333438
type: SpeciesReference
stoichiometry: 1.0
species: 724100

727820
type: Reaction
kinetic law: 334591
product: 334578
reactant: 334566
reactant: 334554
notes: PP2A does most of the dephosph of I1 at basal Ca levels. See the review by Cohen in Ann Rev Biochem 1989. For now, lets halve Km. k1 was 3.3e-6, now 6.6e-6
fast: false
reversible: true

334591
type: KineticLaw
local parameters: 958636
local parameters: 958634
notes: k1*PP1_PSD_slash_I1_star_*PP2A-k2*PP2A_slash_PP2A_minus_dephosph_minus_I1_PSD_slash_PP2A_minus_dephosph_minus_I1_PSD_cplx

958636
type: LocalParameter
units: 331247
value: 7.50006E-16

958634
type: LocalParameter
units: 331331
value: 6.4584E-18

334578
type: SpeciesReference
stoichiometry: 1.0
species: 724680

334566
type: SpeciesReference
stoichiometry: 1.0
species: 724620

334554
type: SpeciesReference
stoichiometry: 1.0
species: 725080

724380
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.44537037037037E-8
initial amount: NaN
in compartment: 723960

727940
type: Reaction
kinetic law: 334883
product: 334871
reactant: 334859
reactant: 334847
notes: The rates here are so slow I do not know if we should even bother with this enz reacn. These numbers are from Liu and Storm. Other refs suggest that the Km stays the same but the Vmax goes to 10% of the CaM stim levels. Prev: k1=2.2e-9, k2 = 0.0052, k3 = 0.0013 New : k1=5.7e-8, k2=.136, k3=.034
fast: false
reversible: true

334883
type: KineticLaw
local parameters: 958651
local parameters: 958649
notes: k1*PP1_PSD_slash_I1_star_*CaNAB_minus_Ca4-k2*CaNAB_minus_Ca4_slash_dephosph_inhib1_noCaM_PSD_slash_dephosph_inhib1_noCaM_PSD_cplx

958651
type: LocalParameter
units: 331247
value: 1.224E-17

958649
type: LocalParameter
units: 331331
value: 3.420036E-19

334871
type: SpeciesReference
stoichiometry: 1.0
species: 724760

334859
type: SpeciesReference
stoichiometry: 1.0
species: 724720

334847
type: SpeciesReference
stoichiometry: 1.0
species: 725080

728480
type: Reaction
kinetic law: 336195
product: 336183
product: 336171
reactant: 336159
fast: false
reversible: false

336195
type: KineticLaw
local parameters: 958712
notes: k3*tot_minus_CaM_minus_CaMKII_minus_PSD_slash_CaM_minus_act_minus_305_minus_PSD_slash_CaM_minus_act_minus_305_minus_PSD_cplx

958712
type: LocalParameter
units: 331247
value: 6.0E-17

336183
type: SpeciesReference
stoichiometry: 1.0
species: 726280

336171
type: SpeciesReference
stoichiometry: 1.0
species: 724900

336159
type: SpeciesReference
stoichiometry: 1.0
species: 725400

725920
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

728760
type: Reaction
kinetic law: 336872
product: 336860
product: 336848
reactant: 336836
fast: false
reversible: false

336872
type: KineticLaw
local parameters: 958746
notes: k3*AC_slash_CaM_dot_PDE1_slash_CaM_dot_PDE1_slash_CaM_dot_PDE1_cplx

958746
type: LocalParameter
units: 331247
value: 9.0E-16

336860
type: SpeciesReference
stoichiometry: 1.0
species: 725700

336848
type: SpeciesReference
stoichiometry: 1.0
species: 725560

336836
type: SpeciesReference
stoichiometry: 1.0
species: 725720

727200
type: Reaction
kinetic law: 333082
product: 333069
product: 333057
reactant: 333045
notes: This has to be fast, as the activation of PKA by cAMP is also fast. kf was 10
fast: false
reversible: true

333082
type: KineticLaw
local parameters: 958566
local parameters: 958565
notes: kf*PKA_slash_R2C2_minus_cAMP4-kb*PKA_minus_active*PKA_slash_R2C_minus_cAMP4

958566
type: LocalParameter
units: 331331
value: 1.6199838E-15

958565
type: LocalParameter
units: 331247
value: 5.4E-15

333069
type: SpeciesReference
stoichiometry: 1.0
species: 725860

333057
type: SpeciesReference
stoichiometry: 1.0
species: 724180

333045
type: SpeciesReference
stoichiometry: 1.0
species: 725840

727240
type: Reaction
kinetic law: 333180
product: 333168
reactant: 333156
reactant: 333143
notes: This has to be set to zero for matching the expts in vitro. In vivo we need to consider the inhibition though. kf = 1e-5 kb = 1
fast: false
reversible: true

333180
type: KineticLaw
local parameters: 958570
local parameters: 958569
notes: kf*PKA_minus_active*PKA_slash_PKA_minus_inhibitor-kb*PKA_slash_inhibited_minus_PKA

958570
type: LocalParameter
units: 331247
value: 9.0E-17

958569
type: LocalParameter
units: 331331
value: 5.399946E-15

333168
type: SpeciesReference
stoichiometry: 1.0
species: 725920

333156
type: SpeciesReference
stoichiometry: 1.0
species: 725900

333143
type: SpeciesReference
stoichiometry: 1.0
species: 724180

727880
type: Reaction
kinetic law: 334738
product: 334726
product: 334714
reactant: 334702
fast: false
reversible: false

334738
type: KineticLaw
local parameters: 958642
notes: k3*PP2A_slash_PP2A_minus_dephosph_minus_PP1_minus_I_star__PSD_slash_PP2A_minus_dephosph_minus_PP1_minus_I_star__PSD_cplx

958642
type: LocalParameter
units: 331247
value: 1.8E-16

334726
type: SpeciesReference
stoichiometry: 1.0
species: 724620

334714
type: SpeciesReference
stoichiometry: 1.0
species: 725120

334702
type: SpeciesReference
stoichiometry: 1.0
species: 724700

726220
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.0
initial amount: NaN
in compartment: 723980

728780
type: Reaction
kinetic law: 336920
product: 336908
reactant: 336896
reactant: 336884
notes: Phorbol esters have little effect on AC1 or on the Gs-stimulation of AC2. So in this model we are only dealing with the increase in basal activation of AC2 induced by PKC k1 = 1.66e-6 k2 = 16 k3 =4
fast: false
reversible: true

336920
type: KineticLaw
local parameters: 958750
local parameters: 958748
notes: k1*AC_slash_AC2*PKC_minus_active-k2*PKC_minus_active_slash_phosph_minus_AC2_slash_phosph_minus_AC2_cplx

958750
type: LocalParameter
units: 331247
value: 1.44E-15

958748
type: LocalParameter
units: 331331
value: 5.399946E-17

336908
type: SpeciesReference
stoichiometry: 1.0
species: 725960

336896
type: SpeciesReference
stoichiometry: 1.0
species: 725940

336884
type: SpeciesReference
stoichiometry: 1.0
species: 725540

728320
type: Reaction
kinetic law: 335808
product: 335796
product: 335784
reactant: 335771
fast: false
reversible: false

335808
type: KineticLaw
local parameters: 958692
notes: k3*CaM_Ca_n_minus_CaNAB_slash_dephosph_inhib1_slash_dephosph_inhib1_cplx

958692
type: LocalParameter
units: 331247
value: 3.06E-17

335796
type: SpeciesReference
stoichiometry: 1.0
species: 725280

335784
type: SpeciesReference
stoichiometry: 1.0
species: 724540

335771
type: SpeciesReference
stoichiometry: 1.0
species: 725300

726940
type: Reaction
kinetic law: 332526
product: 332514
reactant: 332502
fast: false
reversible: true

332526
type: KineticLaw
local parameters: 958539
local parameters: 958537
notes: kf*Ca_control_cyt-kb*Ca

958539
type: LocalParameter
units: 331247
value: 9.0E-15

958537
type: LocalParameter
units: 331247
value: 9.0E-15

332514
type: SpeciesReference
stoichiometry: 1.0
species: 724160

332502
type: SpeciesReference
stoichiometry: 1.0
species: 726020

727720
type: Reaction
kinetic law: 334348
product: 334336
product: 334324
reactant: 334312
fast: false
reversible: false

334348
type: KineticLaw
local parameters: 958622
notes: k3*CaMKII_slash_tot_autonomous_CaMKII_slash_auton_286_slash_auton_286_cplx

958622
type: LocalParameter
units: 331247
value: 4.5E-17

334336
type: SpeciesReference
stoichiometry: 1.0
species: 726140

334324
type: SpeciesReference
stoichiometry: 1.0
species: 724300

334312
type: SpeciesReference
stoichiometry: 1.0
species: 724420

724420
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 1.89444444444444E-5
initial amount: NaN
in compartment: 723960

726500
type: Reaction
kinetic law: 331489
product: 331477
reactant: 331465
reactant: 331453
notes: Affinity is up 1000X. Time to release is about 20 sec, so the kb is OK at 0.1 This makes Kf around 1.6666e-3
fast: false
reversible: true

331489
type: KineticLaw
local parameters: 958492
local parameters: 958491
notes: kf*CaMKII_slash_CaMKII_minus_thr286*CaM_minus_Ca4-kb*CaMKII_slash_CaMKII_minus_thr286_star__minus_CaM

958492
type: LocalParameter
units: 331247
value: 9.0E-18

958491
type: LocalParameter
units: 331331
value: 9.001692E-14

331477
type: SpeciesReference
stoichiometry: 1.0
species: 724300

331465
type: SpeciesReference
stoichiometry: 1.0
species: 724020

331453
type: SpeciesReference
stoichiometry: 1.0
species: 724340

728140
type: Reaction
kinetic law: 335369
product: 335357
reactant: 335345
reactant: 335333
fast: false
reversible: true

335369
type: KineticLaw
local parameters: 958676
local parameters: 958674
notes: k1*CaMKII_minus_thr286_minus_PSD*PP1_minus_active_PSD-k2*PP1_minus_active_PSD_slash_Deph_minus_thr286b_slash_Deph_minus_thr286b_cplx

958676
type: LocalParameter
units: 331247
value: 8.0E-18

958674
type: LocalParameter
units: 331331
value: 4.99998E-18

335357
type: SpeciesReference
stoichiometry: 1.0
species: 725180

335345
type: SpeciesReference
stoichiometry: 1.0
species: 725140

335333
type: SpeciesReference
stoichiometry: 1.0
species: 724860

725220
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723980

727040
type: Reaction
kinetic law: 332719
product: 332707
reactant: 332695
notes: Random rate.
fast: false
reversible: true

332719
type: KineticLaw
local parameters: 958549
local parameters: 958548
notes: kf*AC_slash_AC2_star_-kb*AC_slash_AC2

958549
type: LocalParameter
units: 331247
value: 0.0

958548
type: LocalParameter
units: 331247
value: 9.0E-18

332707
type: SpeciesReference
stoichiometry: 1.0
species: 725540

332695
type: SpeciesReference
stoichiometry: 1.0
species: 725520

728160
type: Reaction
kinetic law: 335418
product: 335406
product: 335393
reactant: 335381
fast: false
reversible: false

335418
type: KineticLaw
local parameters: 958677
notes: k3*PP1_minus_active_PSD_slash_Deph_minus_thr286b_slash_Deph_minus_thr286b_cplx

958677
type: LocalParameter
units: 331247
value: 2.0E-18

335406
type: SpeciesReference
stoichiometry: 1.0
species: 725140

335393
type: SpeciesReference
stoichiometry: 1.0
species: 724880

335381
type: SpeciesReference
stoichiometry: 1.0
species: 725180

725820
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: 723960

728620
type: Reaction
kinetic law: 336533
product: 336521
reactant: 336509
reactant: 336497
notes: Best rates are from Conti et al Biochem 34 7979-7987 1995. Though these are for the Sertoli cell form, it looks like they carry nicely into alternatively spliced brain form. See Sette et al JBC 269:28 18271-18274 Km ~2 uM, Vmax est ~ 10 umol/min/mg for pure form. Brain protein is 93 kD but this was 67. So k3 ~10, k2 ~40, k1 ~4.2e-6
fast: false
reversible: true

336533
type: KineticLaw
local parameters: 958730
local parameters: 958729
notes: k1*cAMP*AC_slash_cAMP_minus_PDE-k2*AC_slash_cAMP_minus_PDE_slash_PDE_slash_PDE_cplx

958730
type: LocalParameter
units: 331247
value: 3.6E-15

958729
type: LocalParameter
units: 331331
value: 2.2680162E-16

336521
type: SpeciesReference
stoichiometry: 1.0
species: 725600

336509
type: SpeciesReference
stoichiometry: 1.0
species: 725580

336497
type: SpeciesReference
stoichiometry: 1.0
species: 725460

727780
type: Reaction
kinetic law: 334493
product: 334481
reactant: 334469
reactant: 334457
notes: k1 changed from 3.3e-6 to 6.6e-6
fast: false
reversible: true

334493
type: KineticLaw
local parameters: 958631
local parameters: 958629
notes: k1*PP1_slash_PP1_minus_I1_star_*PP2A-k2*PP2A_slash_PP2A_minus_dephosph_minus_PP1_minus_I_star__slash_PP2A_minus_dephosph_minus_PP1_minus_I_star__cplx

958631
type: LocalParameter
units: 331247
value: 7.50006E-16

958629
type: LocalParameter
units: 331331
value: 5.81256E-17

334481
type: SpeciesReference
stoichiometry: 1.0
species: 724660

334469
type: SpeciesReference
stoichiometry: 1.0
species: 724620

334457
type: SpeciesReference
stoichiometry: 1.0
species: 724580

726660
type: Reaction
kinetic law: 331874
product: 331862
reactant: 331850
reactant: 331838
notes: This process is probably much more complicated and involves CaM. However, as I can\'t find detailed info I am bundling this into a single step. Based on Steemer and Klee pg 6863, the Kact is 0.5 uM. kf/kb = 1/(0.5 * 6e5)^2 = 1.11e-11
fast: false
reversible: true

331874
type: KineticLaw
local parameters: 958509
local parameters: 958508
notes: kf*Ca^2*PP2B_slash_CaNAB_minus_Ca2-kb*CaNAB_minus_Ca4

958509
type: LocalParameter
units: 331247
value: 9.0E-17

958508
type: LocalParameter
units: 331283
value: 3.24008424E-16

331862
type: SpeciesReference
stoichiometry: 1.0
species: 724720

331850
type: SpeciesReference
stoichiometry: 1.0
species: 724800

331838
type: SpeciesReference
stoichiometry: 2.0
species: 724160

728220
type: Reaction
kinetic law: 335564
product: 335551
reactant: 335539
reactant: 335527
fast: false
reversible: true

335564
type: KineticLaw
local parameters: 958685
local parameters: 958684
notes: k1*CaMKII_star__star__star__minus_PSD*PP1_minus_active_PSD-k2*PP1_minus_active_PSD_slash_Deph_minus_thr286c_slash_Deph_minus_thr286c_cplx

958685
type: LocalParameter
units: 331247
value: 8.0E-18

958684
type: LocalParameter
units: 331331
value: 4.99998E-18

335551
type: SpeciesReference
stoichiometry: 1.0
species: 725220

335539
type: SpeciesReference
stoichiometry: 1.0
species: 725140

335527
type: SpeciesReference
stoichiometry: 1.0
species: 724900

726720
type: Reaction
kinetic law: 332018
product: 332006
reactant: 331994
reactant: 331982
fast: false
reversible: true

332018
type: KineticLaw
local parameters: 958515
local parameters: 958514
notes: kf*CaMKII_minus_PSD*CaM_minus_Ca4_minus_PSD-kb*CaMKII_minus_CaM_minus_PSD

958515
type: LocalParameter
units: 331247
value: 0.0

958514
type: LocalParameter
units: 331331
value: 4.99998E-16

332006
type: SpeciesReference
stoichiometry: 1.0
species: 724840

331994
type: SpeciesReference
stoichiometry: 1.0
species: 725020

331982
type: SpeciesReference
stoichiometry: 1.0
species: 724880

727340
type: Reaction
kinetic law: 333425
product: 333412
reactant: 333399
reactant: 333386
fast: false
reversible: true

333425
type: KineticLaw
local parameters: 958578
local parameters: 958577
notes: k1*CaMKII_slash_CaMKII_star__star__star_*PP1_minus_active-k2*PP1_minus_active_slash_Deph_minus_thr305_slash_Deph_minus_thr305_cplx

958578
type: LocalParameter
units: 331247
value: 9.0E-16

958577
type: LocalParameter
units: 331331
value: 2.2062942E-16

333412
type: SpeciesReference
stoichiometry: 1.0
species: 724100

333399
type: SpeciesReference
stoichiometry: 1.0
species: 724040

333386
type: SpeciesReference
stoichiometry: 1.0
species: 724320

727800
type: Reaction
kinetic law: 334542
product: 334530
product: 334518
reactant: 334506
fast: false
reversible: false

334542
type: KineticLaw
local parameters: 958632
notes: k3*PP2A_slash_PP2A_minus_dephosph_minus_PP1_minus_I_star__slash_PP2A_minus_dephosph_minus_PP1_minus_I_star__cplx

958632
type: LocalParameter
units: 331247
value: 1.8E-16

334530
type: SpeciesReference
stoichiometry: 1.0
species: 724620

334518
type: SpeciesReference
stoichiometry: 1.0
species: 724600

334506
type: SpeciesReference
stoichiometry: 1.0
species: 724660

728240
type: Reaction
kinetic law: 335612
product: 335600
product: 335588
reactant: 335576
fast: false
reversible: false

335612
type: KineticLaw
local parameters: 958686
notes: k3*PP1_minus_active_PSD_slash_Deph_minus_thr286c_slash_Deph_minus_thr286c_cplx

958686
type: LocalParameter
units: 331247
value: 2.0E-18

335600
type: SpeciesReference
stoichiometry: 1.0
species: 725140

335588
type: SpeciesReference
stoichiometry: 1.0
species: 725980

335576
type: SpeciesReference
stoichiometry: 1.0
species: 725220

726240
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 22.0
initial amount: NaN
in compartment: 723960

728700
type: Reaction
kinetic law: 336728
product: 336716
reactant: 336704
reactant: 336692
notes: Rate is 1/6 of the CaM stim form. We\'ll just reduce all lf k1, k2, k3 so that the Vmax goes down 1/6.
fast: false
reversible: true

336728
type: KineticLaw
local parameters: 958740
local parameters: 958738
notes: k1*cAMP*AC_slash_PDE1-k2*AC_slash_PDE1_slash_PDE1_slash_PDE1_cplx

958740
type: LocalParameter
units: 331247
value: 6.003E-16

958738
type: LocalParameter
units: 331331
value: 1.8900054E-17

336716
type: SpeciesReference
stoichiometry: 1.0
species: 725680

336704
type: SpeciesReference
stoichiometry: 1.0
species: 725660

336692
type: SpeciesReference
stoichiometry: 1.0
species: 725460

727160
type: Reaction
kinetic law: 332985
product: 332973
reactant: 332961
reactant: 332949
fast: false
reversible: true

332985
type: KineticLaw
local parameters: 958562
local parameters: 958561
notes: kf*PKA_slash_R2C2_minus_cAMP2*cAMP-kb*PKA_slash_R2C2_minus_cAMP3

958562
type: LocalParameter
units: 331247
value: 9.9E-15

958561
type: LocalParameter
units: 331331
value: 6.750054E-15

332973
type: SpeciesReference
stoichiometry: 1.0
species: 725820

332961
type: SpeciesReference
stoichiometry: 1.0
species: 725460

332949
type: SpeciesReference
stoichiometry: 1.0
species: 725800

727620
type: Reaction
kinetic law: 334106
product: 334093
reactant: 334081
reactant: 334069
fast: false
reversible: true

334106
type: KineticLaw
local parameters: 958611
local parameters: 958609
notes: k1*CaMKII_slash_CaMKII_minus_CaM*CaMKII_slash_tot_CaM_CaMKII-k2*CaMKII_slash_tot_CaM_CaMKII_slash_CaM_act_286_slash_CaM_act_286_cplx

958611
type: LocalParameter
units: 331247
value: 1.8E-16

958609
type: LocalParameter
units: 331331
value: 9.91197E-19

334093
type: SpeciesReference
stoichiometry: 1.0
species: 724380

334081
type: SpeciesReference
stoichiometry: 1.0
species: 726120

334069
type: SpeciesReference
stoichiometry: 1.0
species: 724280

728520
type: Reaction
kinetic law: 336292
product: 336280
product: 336267
reactant: 336255
fast: false
reversible: false

336292
type: KineticLaw
local parameters: 958717
notes: k3*tot_minus_CaM_minus_CaMKII_minus_PSD_slash_CaM_minus_act_minus_286_minus_PSD_slash_CaM_minus_act_minus_286_minus_PSD_cplx

958717
type: LocalParameter
units: 331247
value: 5.0E-18

336280
type: SpeciesReference
stoichiometry: 1.0
species: 726280

336267
type: SpeciesReference
stoichiometry: 1.0
species: 724820

336255
type: SpeciesReference
stoichiometry: 1.0
species: 725420

727180
type: Reaction
kinetic law: 333033
product: 333021
reactant: 333009
reactant: 332997
fast: false
reversible: true

333033
type: KineticLaw
local parameters: 958564
local parameters: 958563
notes: kf*cAMP*PKA_slash_R2C2_minus_cAMP3-kb*PKA_slash_R2C2_minus_cAMP4

958564
type: LocalParameter
units: 331247
value: 2.925E-15

958563
type: LocalParameter
units: 331331
value: 6.750054E-15

333021
type: SpeciesReference
stoichiometry: 1.0
species: 725840

333009
type: SpeciesReference
stoichiometry: 1.0
species: 725820

332997
type: SpeciesReference
stoichiometry: 1.0
species: 725460

727640
type: Reaction
kinetic law: 334154
product: 334142
product: 334130
reactant: 334118
fast: false
reversible: false

334154
type: KineticLaw
local parameters: 958612
notes: k3*CaMKII_slash_tot_CaM_CaMKII_slash_CaM_act_286_slash_CaM_act_286_cplx

958612
type: LocalParameter
units: 331247
value: 4.5E-17

334142
type: SpeciesReference
stoichiometry: 1.0
species: 726120

334130
type: SpeciesReference
stoichiometry: 1.0
species: 724300

334118
type: SpeciesReference
stoichiometry: 1.0
species: 724380

728420
type: Reaction
kinetic law: 336051
product: 336038
reactant: 336026
reactant: 336014
fast: false
reversible: true

336051
type: KineticLaw
local parameters: 958706
local parameters: 958704
notes: k1*PP1_PSD_slash_PP1_minus_I1_star_*CaM_Ca_n_minus_CaNAB-k2*CaM_Ca_n_minus_CaNAB_slash_dephosph_minus_PP1_minus_I_star__PSD_slash_dephosph_minus_PP1_minus_I_star__PSD_cplx

958706
type: LocalParameter
units: 331247
value: 1.224E-16

958704
type: LocalParameter
units: 331331
value: 3.420036E-18

336038
type: SpeciesReference
stoichiometry: 1.0
species: 725360

336026
type: SpeciesReference
stoichiometry: 1.0
species: 725280

336014
type: SpeciesReference
stoichiometry: 1.0
species: 725100

728460
type: Reaction
kinetic law: 336147
product: 336135
reactant: 336123
reactant: 336111
fast: false
reversible: true

336147
type: KineticLaw
local parameters: 958711
local parameters: 958709
notes: k1*CaMKII_minus_thr286_minus_PSD*tot_minus_CaM_minus_CaMKII_minus_PSD-k2*tot_minus_CaM_minus_CaMKII_minus_PSD_slash_CaM_minus_act_minus_305_minus_PSD_slash_CaM_minus_act_minus_305_minus_PSD_cplx

958711
type: LocalParameter
units: 331247
value: 2.4E-16

958709
type: LocalParameter
units: 331331
value: 9.375E-19

336135
type: SpeciesReference
stoichiometry: 1.0
species: 725400

336123
type: SpeciesReference
stoichiometry: 1.0
species: 726280

336111
type: SpeciesReference
stoichiometry: 1.0
species: 724860

728000
type: Reaction
kinetic law: 335030
product: 335018
product: 335005
reactant: 334993
fast: false
reversible: false

335030
type: KineticLaw
local parameters: 958657
notes: k3*tot_minus_auto_minus_PSD_slash_auton_minus_305_minus_PSD_slash_auton_minus_305_minus_PSD_cplx

958657
type: LocalParameter
units: 331247
value: 6.0E-17

335018
type: SpeciesReference
stoichiometry: 1.0
species: 726160

335005
type: SpeciesReference
stoichiometry: 1.0
species: 724900

334993
type: SpeciesReference
stoichiometry: 1.0
species: 724920

726920
type: Reaction
kinetic law: 332490
product: 332477
product: 332465
reactant: 332453
fast: false
reversible: true

332490
type: KineticLaw
local parameters: 958536
local parameters: 958535
notes: kf*CaMKII_minus_CaM_minus_PSD-kb*CaM_minus_Ca4_minus_PSD*CaMKII_minus_PSD

958536
type: LocalParameter
units: 331331
value: 0.0

958535
type: LocalParameter
units: 331247
value: 5.0E-17

332477
type: SpeciesReference
stoichiometry: 1.0
species: 724880

332465
type: SpeciesReference
stoichiometry: 1.0
species: 725020

332453
type: SpeciesReference
stoichiometry: 1.0
species: 724840

727700
type: Reaction
kinetic law: 334300
product: 334288
reactant: 334276
reactant: 334264
fast: false
reversible: true

334300
type: KineticLaw
local parameters: 958621
local parameters: 958619
notes: k1*CaMKII_slash_CaMKII_minus_CaM*CaMKII_slash_tot_autonomous_CaMKII-k2*CaMKII_slash_tot_autonomous_CaMKII_slash_auton_286_slash_auton_286_cplx

958621
type: LocalParameter
units: 331247
value: 1.8E-16

958619
type: LocalParameter
units: 331331
value: 6.428808E-19

334288
type: SpeciesReference
stoichiometry: 1.0
species: 724420

334276
type: SpeciesReference
stoichiometry: 1.0
species: 726140

334264
type: SpeciesReference
stoichiometry: 1.0
species: 724280