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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 |
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. |
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. |
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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