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Molecule Parameter List for neurogranin*_PSD | 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 | AMPAR_traff_
model0 | 59 | Network |
Shared_Object_AMPAR_traff_model0, CaMKII, CaM,
PP1, PP2B, PP1_PSD,
PKA, AC, AMPAR,
AMPAR_memb | | This is model 0 from Hayer and Bhalla, PLoS Comput Biol 2005. It has a bistable model of AMPAR traffick, plus a
non-bistable model of CaMKII. This differs from the reference model (model 1) in that model0 lacks degradation and turno
ver reactions for AMPAR. |
neurogranin*_PSD acting as a Molecule in AMPAR_traff_model0 Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | neurogranin*_PSD | AMPAR_traff_
model0
Accession No. : 59 | CaM
Pathway No. : 236 | 0 | 0.01 | No | | The phosph form does not bind CaM (Huang et al ABB 305:2 570-580 1993) |
neurogranin*_PSD acting as a Substrate for an Enzyme in AMPAR_traff_model0 Network
Enzyme Molecule /
Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | CaM_Ca_n-CaNAB /
dephosph_
neurogranin_PSD
| AMPAR_traff_
model0
Accession No. : 59 | PP2B
Pathway No. : 238 | 10.012 | 0.67 | 3.98507 | explicit E-S complex | Substrate
neurogranin*_
PSD
Product
neurogranin_PSD
| | From Seki et al ABB 316(2):673-679 |
neurogranin*_PSD acting as a Product of an Enzyme in AMPAR_traff_model0 Network
neurogranin*_PSD acting as a Substrate in a reaction in AMPAR_traff_model0 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 |
dephosph-neurogr
anin_
PSD | AMPAR_traff_
model0
Accession No. : 59 | CaM
Pathway No. : 236 | 0.005
(s^-1) | 0
(s^-1) | - | - | Substrate
neurogranin*_
PSD
Product
neurogranin_PSD
| | This is put in to keep the basal levels of neurogranin* experimentally reasonable. From various papers, specially Ramakers et al JBC 270:23 1995 13892-13898, it looks like the basal level of phosph is between 20 and 40%. I est around 25 % The kf of 0.005 gives around this level at basal PKC activity levels of 0.1 uM active PKC. |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
This Copyright is applied to ensure that the contents of this database remain freely available. Please see FAQ for details. |
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