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Name Notes Model

Molecule Parameter List for CDK2cycA

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

CDK2cycA 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	0	0	1	1

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
CDK2-CyclinA_ activation_ improved	43	Pathway	CDK2_CyclinA_activation_improved
This version of the model for CDK2/Cyclin A complex activation (expressed in E. coli) is a good match to the data and the simulation matches the graphs Fig.1B and Fig.1B inset. The rate constants though differ from the rate constants in Morris MC. et al. J Biol Chem. (2002) 277(26):23847-53.

CDK2cycA acting as a Molecule in  CDK2-CyclinA_activation_improved Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
CDK2cycA	CDK2-CyclinA_ activation_ improved Accession No. : 43	CDK2_CyclinA_ activation_ improved Pathway No. : 191	0	999.98	No
CoInit = 0 uM Morris et al (2002 june 28) J Biol Chem. 277(26): 23847--23853 Reaction scheme 1 pp.23848

CDK2cycA acting as a Summed Molecule in  CDK2-CyclinA_activation_improved Network

Accession Name	Pathway Name	Target	Input
CDK2-CyclinA_ activation_ improved Accession No. : 43	CDK2_CyclinA_ activation_ improved Pathway No. : 191	total_fluorescence	CDK2cycA CDK2cycA* basal_ fluorescence
The volume of this pool is scaled to 1/5.8 times the general volume in the model (1e-15 m^3) so that the range of fluorescent changes is 0.058 for complete consumption of the fluorophore (0.1 uM of Cdk2). The volume is therefore 0.1724e-15

CDK2cycA acting as a Substrate in a reaction in  CDK2-CyclinA_activation_improved 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
Activation	CDK2-CyclinA_ activation_ improved Accession No. : 43	CDK2_CyclinA_ activation_ improved Pathway No. : 191	1.1 (s^-1)	0.6 (s^-1)	Keq = 0.5455(uM)	0.588sec	Substrate CDK2cycA Product CDK2cycA*
Morris et al 2002 JBC 277(26): 23847--23853 kf and kb values not published kobs2 = 2.5+-0.1/sec kf = 1.1/sec and kb = 0.6/sec used in this simulation

CDK2cycA acting as a Product in a reaction in  CDK2-CyclinA_activation_improved 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
Binding	CDK2-CyclinA_ activation_ improved Accession No. : 43	CDK2_CyclinA_ activation_ improved Pathway No. : 191	33 (uM^-1 s^-1)	50 (s^-1)	Kd(bf) = 1.5152(uM)	-	Substrate Cdk2 CyclinA Product CDK2cycA
kf = 33/sec/uM and kb = 50/sec differs from the values in Morris et al (2002 june 28) J Biol Chem. 277(26):23847-53 Table 1 pp.23849 Published kf = 19/sec/uM and kb = 25/sec