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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_ model1	60	Network	Shared_Object_AMPAR_traff_model1,  CaMKII,  CaM,   PP1,  PP2B,  PP1_PSD,   PKA,  AC,  AMPAR,   AMPAR_memb
This is the basic model of AMPAR trafficking bistability. It is based on Hayer and Bhalla, PLoS Comput. Biol. 2005. It includes the degradation and turnover of AMPARs. The CaMKII portion of the model is not bistable.

AMP acting as a Molecule in  AMPAR_traff_model1 Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
AMP	AMPAR_traff_ model1 Accession No. : 60	AC Pathway No. : 251	0	0.09	No

AMP acting as a Product of an Enzyme in  AMPAR_traff_model1 Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	cAMP-PDE  / PDE	AMPAR_traff_ model1 Accession No. : 60	AC Pathway No. : 251	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_ model1 Accession No. : 60	AC Pathway No. : 251	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_ model1 Accession No. : 60	AC Pathway No. : 251	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_ model1 Accession No. : 60	AC Pathway No. : 251	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.