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Molecule Parameter List for Cdc20notA

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

Cdc20notA 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	1	2	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.

Cdc20notA acting as a Molecule in  Mammalian_cell_cycle Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
Cdc20notA	Mammalian_cell_ cycle Accession No. : 85	Cdc20_Grp Pathway No. : 1074	0	200	No

Cdc20notA 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
IEP  / k13	Mammalian_cell_ cycle Accession No. : 85	CELLDIV Pathway No. : 1070	0.00499996	5	4	explicit E-S complex	Substrate Cdc20notA Product Cdc20
Represented as k13.[IEP].[Cdc20A]/(J13 + [Cdc20A]) which is a classical MM form. k13 = 5, J13 = 0.005

Cdc20notA acting as a Product of 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	CycB  / k11	Mammalian_cell_ cycle Accession No. : 85	CELLDIV Pathway No. : 1070	1	3	4	explicit E-S complex	Substrate AminoAcids Product Cdc20notA
	Represented simply as [CycB]*k11, where k11 is 1.5. As AAs are at 1, we get rate = [AAs].[CycB].kcat / (Km + [AAs]) So if we set Km = [AAs] = 1, then kcat = 3 gives our desired equation.
2	k14_enz  / k14	Mammalian_cell_ cycle Accession No. : 85	Cdc20_Grp Pathway No. : 1074	0.00500008	2.5	4	explicit E-S complex	Substrate Cdc20 Product Cdc20notA
	Represented as k14.[Cdc20] / (J4 + [Cdc20]) But I suspect it should be J14. k14 = 2.5 J14 = 0.005 If we set enz = 1, Km = J14, kcat = k14, this equation applies.

Cdc20notA 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
k12A	Mammalian_cell_ cycle Accession No. : 85	Cdc20_Grp Pathway No. : 1074	1.5 (s^-1)	0 (s^-1)	-	-	Substrate Cdc20notA Product degraded

Cdc20notA 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
k11_prime	Mammalian_cell_ cycle Accession No. : 85	Cdc20_Grp Pathway No. : 1074	0 (s^-1)	0 (s^-1)	-	-	Substrate AminoAcids Product Cdc20notA
Kind of a silly reaction, with all terms zero, but it is there in the Novak and Tyson equations.