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Molecule Parameter List for PLA2*-Ca | 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 | Ajay_Bhalla_
2004_Feedback_
Tuning | 78 | Network |
Shared_Object_Ajay_Bhalla_2004_Feedback_Tuning, PKC, PLA2,
PLCbeta, Gq, MAPK,
Ras, EGFR, Sos,
PLC_g, CaMKII, CaM,
PP1, PP2B, PKA,
AC | | This model is taken from Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80. This is the feedback model from Figure 8a. |
PLA2*-Ca acting as a Molecule in Ajay_Bhalla_2004_Feedback_Tuning Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | PLA2*-Ca | Ajay_Bhalla_
2004_Feedback_
Tuning
Accession No. : 78 | PLA2
Pathway No. : 349 | 0 | 1.5 | No | | Phosphorylated form of PLA2. Still need to hook it up using kinases. PKA: Wightman et al JBC 257 pp6650 1982 PKC: Many refs, eg Gronich et al JBC 263 pp 16645, 1988 but see Lin etal MAPK: Lin et al, Cell 72 pp 269, 1993. Show 3x with MAPK but not PKC alone Do not know if there is a Ca requirement for active phosphorylated state. |
PLA2*-Ca acting as an Enzyme in Ajay_Bhalla_2004_Feedback_Tuning Network
Enzyme Molecule /
Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | PLA2*-Ca /
kenz
| Ajay_Bhalla_
2004_Feedback_
Tuning
Accession No. : 78 | PLA2
Pathway No. : 349 | 20.0002 | 120 | 4 | explicit E-S complex | Substrate
APC
Product
AA
| | This form should be 3 to 6 times as fast as the Ca-only form. I have scaled by 4x which seems to give a 5x rise. 10x raise Oct 22 12 x oct 24, changed k2 = 4 * k3 |
PLA2*-Ca acting as a Product in a reaction in Ajay_Bhalla_2004_Feedback_Tuning 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 | | PLA2*-Ca-act | Ajay_Bhalla_
2004_Feedback_
Tuning
Accession No. : 78 | PLA2
Pathway No. : 349 | 6
(uM^-1 s^-1) | 0.1
(s^-1) | Kd(bf) = 0.0167(uM) | - | Substrate
Ca
PLA2*
Product
PLA2*-Ca
| | To start off, same kinetics as the PLA2-Ca-act direct pathway. Oops ! Missed out the Ca input to this pathway first time round. Let's raise the forward rate about 3x to 5e-6. This will let us reduce the rather high rates we have used for the kenz on PLA2*-Ca. In fact, it may be that the rates are not that different, just that this pathway for getting the PLA2 to the memb is more efficien.... |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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