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Molecule Parameter List for IP3R | 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 |
| IP3R 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 | Synaptic_
Network | 16 | Network |
Shared_Object_Synaptic_Network, PKC, PLA2,
PLCbeta, Gq, MAPK,
Ras, EGFR, Sos,
PLC_g, CaMKII, CaM,
PP1, PP2B, PKA,
AC, CaRegulation | This model is an annotated version of the synaptic signaling network.
The primary reference is Bhalla US and Iyengar R. Science (1999) 283(5400):381-7 but several of the model pathways have been updated.
Bhalla US Biophys J. 2002 Aug;83(2):740-52
Bhalla US J Comput Neurosci. 2002 Jul-Aug;13(1):49-62 |
IP3R acting as a Molecule in Synaptic_Network Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | IP3R | Synaptic_
Network
Accession No. : 16 | CaRegulation
Pathway No. : 86 | 0.0166 | 1000 | No | | The number of the IP3Rs in the cell is present only implicitly in the model, and is lumped in with the total permeability of the IP3R pool. The latter term is constrained by the height of the Ca transient. |
IP3R acting as a Substrate in a reaction in Synaptic_Network 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 | | IP3Rbind | Synaptic_
Network
Accession No. : 16 | CaRegulation
Pathway No. : 86 | 0.05
(uM^-3 s^-1) | 1
(s^-1) | Kd(af) = 2.7144(uM) | - | Substrate
IP3
IP3
IP3
IP3R
Product
IP3R*
| | Based on Lauffenburger and Linderman 1993 Receptors page 200. The binding of IP3 in this reaction has a Hill coeff of 3. The eqns of Mahama and Linderman (cited in the book as 1993 a) are equivalent to the binding all occurring in a single step, so that is how I am doing it in this version. Their Ki1 is 0.07 uM. Lots of other data sources: Ramos-Franco et al 1998 Biophys J 75:834-839 have Ca sensitivity curves. At 250 nM free Ca, the EC50 for type 1 is 58 nM and type 2 is 194 nM. Type 3 would be about 2 uM according to Newton et al 1994 JBC 268(46):28613-28619 For the purposes of this model we use a Kd of 2.7 uM which is high but may be OK at low calcium. The details of Ca interaction with the IP3R are not included in this model. |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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