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Molecule Parameter List for AMP | 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 |
| AMP 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 | 4 | 0 | 0 |
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. |
AMP acting as a Molecule in AMPAR_traff_model0 Network
| Name | Accession Name | Pathway Name | Initial Conc.
(uM) | Volume
(fL) | Buffered | | AMP | AMPAR_traff_
model0
Accession No. : 59 | AC
Pathway No. : 241 | 0 | 0.09 | No | | |
AMP acting as a Product of an Enzyme in AMPAR_traff_model0 Network
| | Enzyme Molecule /
Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents | | 1 | cAMP-PDE /
PDE | AMPAR_traff_
model0
Accession No. : 59 | AC
Pathway No. : 241 | 19.8411 | 10 | 4 | explicit E-S complex | Substrate
cAMP
Product
AMP
| | | Best rates are from Conti et al Biochem 34 7979-7987 1995. Though these are for the Sertoli cell form, it looks like they carry nicely into alternatively spliced brain form. See Sette et al JBC 269:28 18271-18274 Km ~2 uM, Vmax est ~ 10 umol/min/mg for pure form. Brain protein is 93 kD but this was 67. So k3 ~10, k2 ~40, k1 ~4.2e-6 | | 2 | cAMP-PDE* /
PDE* | AMPAR_traff_
model0
Accession No. : 59 | AC
Pathway No. : 241 | 19.8413 | 20 | 4 | explicit E-S complex | Substrate
cAMP
Product
AMP
| | | This form has about twice the activity of the unphosphorylated form. See Sette et al JBC 269:28 18271-18274 1994. We'll ignore cGMP effects for now. | | 3 | PDE1 /
PDE1 | AMPAR_traff_
model0
Accession No. : 59 | AC
Pathway No. : 241 | 39.6999 | 1.667 | 4.0012 | explicit E-S complex | Substrate
cAMP
Product
AMP
| | | Rate is 1/6 of the CaM stim form. We'll just reduce all lf k1, k2, k3 so that the Vmax goes down 1/6. | | 4 | CaM.PDE1 /
CaM.PDE1 | AMPAR_traff_
model0
Accession No. : 59 | AC
Pathway No. : 241 | 39.6831 | 10 | 4 | explicit E-S complex | Substrate
cAMP
Product
AMP
| | | Max activity ~10umol/min/mg in presence of lots of CaM. Affinity is low, 40 uM. k3 = 10, k2 = 40, k1 = (50/40) / 6e5. |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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