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Molecule Parameter List for PDGFR | 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 |
| PDGFR participated as | Molecule | Sum total of | Enzyme | Substrate of an enzyme | Product of an enzyme | Substrate in Reaction | Product in Reaction | | No. of occurrences | 1 | 0 | 0 | 0 | 0 | 1 | 0 |
Accession and Pathway Details | |
| Accession Name | Accession No. | Accession Type | Pathway Link | mkp1_feedback_
effects | 4 | Network |
Shared_Object_mkp1_feedback_effects, Sos, PKC,
MAPK, PLA2, Ras,
PDGFR | | This is a network involving the MAPK-PKC feedback loop with input from the PDGFR in the synapse. The distinctive feature of this model is that it includes MKP-1 induction by MAPK, and the consequent inhibitory regulation of MAPK and the feedback loop. Lots of interesting dynamics arise from this. This link provides supplementary material for the paper Bhalla US et al. Science (2002) 297(5583):1018-23. In the form of several example simulations and demos for the figures in the paper. |
PDGFR acting as a Molecule in mkp1_feedback_effects Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | PDGFR | mkp1_feedback_
effects
Accession No. : 4 | PDGFR
Pathway No. : 38 | 0.1083 | 1000 | No | | Berkers et al JBC 266 say 22K high affinity receptors per cell. Sherrill and Kyte Biochemistry 35 use range 4-200 nM. These values match reasonably. Heidaran et al 1993 JBC 268(13):9287-9295 use NIH3T3 cells and have 6.5e4 receptors/cell. This is also in the same general range. We use this last value because the cell type matches. |
PDGFR acting as a Substrate in a reaction in mkp1_feedback_effects 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 | | act_PDGFR | mkp1_feedback_
effects
Accession No. : 4 | PDGFR
Pathway No. : 38 | 199.998
(uM^-1 s^-1) | 0.1
(s^-1) | Kd(bf) = 0.0005(uM) | - | Substrate
PDGF
PDGFR
Product
L.PDGFR
| | From Heidaran et al JBC268(13):9287 Fig 5. Kd is ~0.5 nM |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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