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Molecule Parameter List for Ubiquitination | 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 |
| Ubiquitination 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 | 0 | 3 |
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. |
Ubiquitination acting as a Molecule in mkp1_feedback_effects Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | Ubiquitination | mkp1_feedback_
effects
Accession No. : 4 | MAPK
Pathway No. : 35 | 0 | 1000 | Yes | | This is a representation of generic ubiquitination followed by degradation. Since this pool is buffered to zero, anything that ends up here is removed from the model. |
Ubiquitination acting as a Product 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 | | 1 | turnover_MKP1 | mkp1_feedback_
effects
Accession No. : 4 | MAPK
Pathway No. : 35 | 0.0004
(s^-1) | 0
(s^-1) | - | - | Substrate
MKP-1
Product
Ubiquitination
| | | Rate of turnover of non-phosph form of MKP1 is from Brondello et al Science 286:2514 1999. Tau is about 45 min. | | 2 | turnover_MKP1** | mkp1_feedback_
effects
Accession No. : 4 | MAPK
Pathway No. : 35 | 0.0001
(s^-1) | 0
(s^-1) | - | - | Substrate
MKP-1**
Product
Ubiquitination
| | | Rate of turnover of phosph form of MKP1 is from Brondello et al Science 286:2514 1999. Tau is about 150 min though it is not a clean exponential falloff. | | 3 | turnover_MKP1* | mkp1_feedback_
effects
Accession No. : 4 | MAPK
Pathway No. : 35 | 0.0001
(s^-1) | 0
(s^-1) | - | - | Substrate
MKP-1-ser359*
Product
Ubiquitination
| | | Rate of turnover of phosph form of MKP1 is from Brondello et al Science 286:2514 1999. Tau is about 150 min though it is not a clean exponential falloff. |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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