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Molecule Parameter List for PPX | 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 | Jak-Stat_
Pathway | 66 | Pathway |
Jak-Stat_Pathway | This model was taken from the Yamada S et al. FEBS Letters 2003 Jan 16;534(1-3):190-6
This model shows the control mechanism of Jak-Stat pathway, here SOCS1 (Suppressor of cytokine signaling-I) was identified as the negative regulator of Jak and STAT signal transduction pathway.
Note: There are a few ambiguities in the paper like initial concentration of IFN and some reactions were missing in the paper that were employed for obtaining the results. The graphs are almost similar to the graphs as shown in the paper but still some ambiguities regarding the concentration are there. Thanks to Dr Satoshi Yamada for clarifying some of those ambiguities and providing the values used in the simulations. |
PPX acting as a Molecule in Jak-Stat_Pathway Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | PPX | Jak-Stat_
Pathway
Accession No. : 66 | Jak-Stat_
Pathway
Pathway No. : 293 | 0.05 | 0.0016667 | No | | PPX: Unidentified phosphatase in the cytoplasm PPX = 50nM = 0.05uM Appendix, Satoshi Yamada et al 2003 FEBS Letters 534:190-196 |
PPX acting as a Substrate in a reaction in Jak-Stat_Pathway 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 | PPX_binding[2] | Jak-Stat_
Pathway
Accession No. : 66 | Jak-Stat_
Pathway
Pathway No. : 293 | 1
(uM^-1 s^-1) | 0.2
(s^-1) | Kd(bf) = 0.2(uM) | - | Substrate
PPX
STAT1c*-STAT1c*
Product
PPX-STAT1c*-STAT
1c*
| | | Binding of PPX to phosphorylated STAT1c dimer Kf = 1*10e+06 /M/sec = 1/uM/sec Kb = 0.2 /sec Appendix, Satoshi Yamada et al 2003 FEBS Letters 534:190-196 | | 2 | PPX_binding[1] | Jak-Stat_
Pathway
Accession No. : 66 | Jak-Stat_
Pathway
Pathway No. : 293 | 1
(uM^-1 s^-1) | 0.2
(s^-1) | Kd(bf) = 0.2(uM) | - | Substrate
PPX
STAT1c*
Product
PPX-STAT1c*
| | | Binding of PPX to phosphorylated STAT1c Kf = 1*10e+06 /M/sec = 1/uM/sec Kb = 0.2 /sec Appendix, Satoshi Yamada et al 2003 FEBS Letters 534:190-196 |
PPX acting as a Product in a reaction in Jak-Stat_Pathway 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 | STAT1c*_
dephosphorylatio
n[1] | Jak-Stat_
Pathway
Accession No. : 66 | Jak-Stat_
Pathway
Pathway No. : 293 | 0.003
(s^-1) | 0
(uM^-2 s^-1) | - | - | Substrate
PPX-STAT1c*-STAT
1c*
Product
PPX
STAT1c
STAT1c*
| | | Cytoplasmic phosphatase (PPX) dephosphorylates STAT1c dimer Kf = 0.003/sec Kb = 0/sec/uM^2 Appendix, Satoshi Yamada et al 2003 FEBS Letters 534:190-196 | | 2 | STAT1c*_dephosp | Jak-Stat_
Pathway
Accession No. : 66 | Jak-Stat_
Pathway
Pathway No. : 293 | 0.003
(s^-1) | 0
(uM^-1 s^-1) | - | - | Substrate
PPX-STAT1c*
Product
PPX
STAT1c
| | | Cytoplasmic phosphatase (PPX) dephosphorylates STAT1c Kf = 0.003/sec Kb = 0/sec/uM Appendix, Satoshi Yamada et al 2003 FEBS Letters 534:190-196 |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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