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Molecule Parameter List for CycA_Kip1

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

CycA_Kip1 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	1	0	4	0	1	1

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
Mammalian_cell_ cycle	85	Network	Growth,  CELLDIV,  Rb_grp,   IE_GRP,  CycB_Grp,  Cdc20_Grp,   Cdh1_grp,  E2F,  CycA_Grp,   CycE_grp,  Early_Response_Genes,  Delayed_Response_Genes,   CycD_Grp
This is a fairly complete mass-action reimplementation of the Novak and Tyson mammalian cell cycle model. It is inexact on two counts. First, it replaces many rather abstracted equations with mass action and Michaelis-Menten forms of enzymes. Second, it does not handle the halving of cellular volume at the division point. Within these limitations, the model does most of what the original paper shows including oscillation of the relevant molecules.

CycA_Kip1 acting as a Molecule in  Mammalian_cell_cycle Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
CycA_Kip1	Mammalian_cell_ cycle Accession No. : 85	CycA_Grp Pathway No. : 1077	0	200	No

CycA_Kip1 acting as a Summed Molecule in  Mammalian_cell_cycle Network

Accession Name	Pathway Name	Target	Input
Mammalian_cell_ cycle Accession No. : 85	CELLDIV Pathway No. : 1070	Tot_Kip1	CycE_Kip1 Kip1 CycA_Kip1 CycD_Kip1

CycA_Kip1 acting as a Substrate for an Enzyme in  Mammalian_cell_cycle Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	CycE  / Ak6_etaE	Mammalian_cell_ cycle Accession No. : 85	CELLDIV Pathway No. : 1070	10.0002	500	4	explicit E-S complex	Substrate CycA_Kip1 Product CycA degraded
	Rate = V6 * [CycD_Kip1]. 6 Apr 2005. Rates were k1 = 500, k2 = 10, k3 = 1 in explicit E.S reaction form. Changed to MM as Km was too low. New values: Km = 10 kcat = Km * k6 * etaE = 500.
2	CycA  / Ak6_etaA	Mammalian_cell_ cycle Accession No. : 85	CELLDIV Pathway No. : 1070	10.0002	500	4	explicit E-S complex	Substrate CycA_Kip1 Product CycA degraded
	See Ak6_etaE
3	CycB  / Ak6_etaB	Mammalian_cell_ cycle Accession No. : 85	CELLDIV Pathway No. : 1070	9.99992	1000	4	explicit E-S complex	Substrate CycA_Kip1 Product CycA degraded
	See Ak6_etaE
4	Cdc20  / Cdc20_deg_CycA_ Kip1	Mammalian_cell_ cycle Accession No. : 85	CELLDIV Pathway No. : 1070	10	200	4	explicit E-S complex	Substrate CycA_Kip1 Product Kip1 degraded
	Rate comes in as k30 = 20 Same rate as for CycA alone. Rate = [Cdc20]*[CycA_Kip1] * k30. To put in MM form: Rate = [Cdc20]*[CycA_Kip1] * kcat / (Km + [CycA_Kip1]) where kcat = k30 * Km and Km >> [CycA_Kip1]. Put Km = 1000, so kcat = 20000 Similar to CycA alone, we instead get k2 = 10, k3 = 1, so k1 = 200. 19 Apr 2005: Go back to MM form because of low Km. Let Km = 10, then kcat = Km * k30 = 200.

CycA_Kip1 acting as a Substrate in a reaction in  Mammalian_cell_cycle 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
k_prime6	Mammalian_cell_ cycle Accession No. : 85	CycA_Grp Pathway No. : 1077	10 (s^-1)	0 (uM^-1 s^-1)	-	-	Substrate CycA_Kip1 Product CycA degraded

CycA_Kip1 acting as a Product in a reaction in  Mammalian_cell_cycle 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
k25	Mammalian_cell_ cycle Accession No. : 85	CycA_Grp Pathway No. : 1077	999.996 (uM^-1 s^-1)	10 (s^-1)	Kd(bf) = 0.01(uM)	-	Substrate CycA Kip1 Product CycA_Kip1