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Molecule Parameter List for CaM-Ca4 | The statistics table lists the distribution of a molecule acting either as a substrate, product, enzyme or as a molecule within the network.
The text color of a molecule is highlighted by  color. | | Statistics |
Accession and Pathway Details | |
| Accession Name | Accession No. | Accession Type | Pathway Link | CaMKII_noPKA_
model3 | 62 | Network |
Shared_Object_CaMKII_noPKA_model3, CaMKII, CaM,
PP1, PP2B, PP1_PSD | | This is the model of CaMKII bistability, model 3. It exhibits bistability in CaMKII activation due to autophosphorylation at the PSD and local saturation of PP1. This version of model 3 does not include the full PKA regulatory pathway, and instead has a predefined initial amount of active PKA. |
CaM-Ca4 acting as a Molecule in CaMKII_noPKA_model3 Network
CaM-Ca4 acting as a Substrate in a reaction in CaMKII_noPKA_model3 Network
| 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 reaction are not consider. |
| | Name | Accession Name | Pathway Name | Kf | Kb | Kd | tau | Reagents | | 1 | CaMKII-bind-CaM | CaMKII_noPKA_
model3
Accession No. : 62 | CaMKII
Pathway No. : 258 | 49.9997
(uM^-1 s^-1) | 5
(s^-1) | Kd(bf) = 0.1(uM) | - | Substrate
CaM-Ca4
CaMKII
Product
CaMKII-CaM
| | | 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. | | 2 | CaMK-thr286-bind
-CaM | CaMKII_noPKA_
model3
Accession No. : 62 | CaMKII
Pathway No. : 258 | 1000.19
(uM^-1 s^-1) | 0.1
(s^-1) | Kd(bf) = 0.0001(uM) | - | Substrate
CaM-Ca4
CaMKII-thr286
Product
CaMKII-thr286*-C
aM
| | | 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 | | 3 | CaMCa4-bind-CaNA
B | CaMKII_noPKA_
model3
Accession No. : 62 | PP2B
Pathway No. : 261 | 599.994
(uM^-1 s^-1) | 1
(s^-1) | Kd(bf) = 0.0017(uM) | - | Substrate
CaM-Ca4
CaNAB-Ca4
Product
CaM_Ca_n-CaNAB
|
CaM-Ca4 acting as a Product in a reaction in CaMKII_noPKA_model3 Network
| 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 reaction are not consider. |
| | Name | Accession Name | Pathway Name | Kf | Kb | Kd | tau | Reagents | | 1 | equilib | CaMKII_noPKA_
model3
Accession No. : 62 | Shared_Object_
CaMKII_noPKA_
model3
Pathway No. : 257 | 540
(s^-1) | 60
(s^-1) | Not applicable** | - | Substrate
CaM-Ca4-PSD
Product
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. | | 2 | CaM-Ca3-bind-Ca | CaMKII_noPKA_
model3
Accession No. : 62 | Shared_Object_
CaMKII_noPKA_
model3
Pathway No. : 257 | 0.465
(uM^-1 s^-1) | 10
(s^-1) | Kd(bf) = 21.5054(uM) | - | Substrate
Ca
CaM-Ca3
Product
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 |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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