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Accession Type:
Network
CaMKII_model3
Shared_Object_
CaMKII_model3
 Molecule
 Enzyme
 Reaction
CaMKII
CaM
PP1
PP2B
PP1_PSD
AC
PKA

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Reaction List for pathway Shared_Object_CaMKII_model3 (Pathway Number 263)

Kd is calculated only for second order reactions, like nA+nB <->nC or nA<->nC+nD, where n is number and A,B,C,D are molecules, where as for first order reactions Keq is calculated. Kd for higher order reactions is not considered.
  Name KfKbKdtauSubstrateProduct
1 back_10.3
(s^-1)		0
(#^-1 s^-1)		Not applicable**-CaMKII-PSD
CaMKII
NMDAR
  Rates set by the translocation experiments of Shen and Meyer, Science 1999.
2 back_20.3
(s^-1)		0
(#^-1 s^-1)		Not applicable**-
  • CaMKII-thr305-PS
    D
    		• CaMK-thr305
    NMDAR
      Same as for back_1
    3 CaM-Ca3-bind-Ca0.465
    (uM^-1 s^-1)    		10
    (s^-1)    		Kd(bf) = 21.5054(uM)-CaM-Ca3
    Ca
    		CaM-Ca4
      Use K3 = 21.5 uM here from Stemmer and Klee table 3. kb/kf =21.5 * 6e5 so kf = 7.75e-7, kb = 10
    4 CaMKII-bind-CaM-
    PSD    		49.9998
    (uM^-1 s^-1)    		0
    (s^-1)    		--CaMKII-PSD
    CaM-Ca4-PSD
    		CaMKII-CaM-PSD
    5 CaMKII-diss-CaM5
    (s^-1)    		0
    (uM^-1 s^-1)    		--CaMKII-CaM-PSD
    		CaM-Ca4-PSD
    CaMKII-PSD
    6 CaMKII-thr286-bi
    nd-CaM-PSD    		1000.02
    (uM^-1 s^-1)    		0.1
    (s^-1)    		Kd(bf) = 0.0001(uM)-
  • CaMKII-thr286-PS
    D
    CaM-Ca4-PSD
  • CaMKII-thr286-Ca
    M-PSD
    •   Same values as for the main compartment Can the main compartment pool of Ca/CaM be used?
    7 Ca_stoch_cyt100
    (s^-1)    		100
    (s^-1)    		Keq = 1(uM)0.005secCa_control_cyt
    		Ca
    8 Ca_stoch_PSD100
    (s^-1)    		100
    (s^-1)    		Keq = 1(uM)0.005secCa_control_PSD
    		Ca-PSD
    9 equilib540
    (s^-1)    		60
    (s^-1)    		Not applicable**-CaM-Ca4-PSD
    		CaM-Ca4
      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.
    10 Inact-PP1499.98
    (uM^-1 s^-1)    		0.1
    (s^-1)    		Kd(bf) = 0.0002(uM)-I1*
    PP1-active_PSD
    		PP1-I1*
      K inhib = 1nM from Cohen Ann Rev Bioch 1989, 4 nM from Foukes et al Assume 2 nM. kf /kb = 8.333e-4
    11 PKC-stoch-input2.5
    (s^-1)    		2.5
    (s^-1)    		Keq = 1(uM)0.2secPKC-control
    		PKC-active
    12 Stoch_Basal_
    CaMKII_PSD    		1
    (s^-1)    		1
    (s^-1)    		Keq = 1(uM)0.5sec
  • basal_CaMKII_
    PSD_control
  • basal_CaMKII_
    PSD
    • 13 transloc_10
    (#^-1 s^-1)    		0
    (s^-1)    		Not applicable**-CaMKII-CaM
    NMDAR
    		CaMKII-CaM-PSD
      Rates to match curve in fig2 from Shen and Meyer, Science 284:162-166(1999), calculated for 6:1 alpha:beta CaMKII heterodimers
    14 transloc_20
    (#^-1 s^-1)    		0
    (s^-1)    		Not applicable**-
  • CaMKII-thr286*-C
    aM
    NMDAR
  • CaMKII-thr286-Ca
    M-PSD
    •   Same as for transloc_1
    ** This is a trasport reation between compartments of different volumes. Therefore Kd is not applicable. Please Note Kf, Kb units are in number of molecules instead of concentration.


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