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Molecule Parameter List for Nucleotides

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

Nucleotides participated as	Molecule	Sum total of	Enzyme	Substrate of an enzyme	Product of an enzyme	Substrate in Reaction	Product in Reaction
No. of occurrences	3	0	0	9	0	0	0

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
Repressilator	68	Network	Lambda-cl_gene,  Lac_gene,  TetR_gene
This is a network model termed as Repressilator in which LacI inhibit transcription of tetR which in turn inhibit transcription of Lambda phage. This model simulates the result as per the Fig 1c of the paper : Elowitz MB, Leibler S., Nature. 2000 Jan 20;403(6767):335-8.

Nucleotides acting as a Molecule in  Repressilator Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
Nucleotides	Repressilator Accession No. : 68	Lambda-cl_gene Pathway No. : 295	0.0006	3	Yes
Nucleotides	Repressilator Accession No. : 68	Lac_gene Pathway No. : 296	0.0006	3	Yes
Nucleotides	Repressilator Accession No. : 68	TetR_gene Pathway No. : 297	0.0006	3	Yes

Nucleotides acting as a Substrate for an Enzyme in  Repressilator Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	Lambda-cl_ operator  / Lambda-cl_ basal_ transcription	Repressilator Accession No. : 68	Lambda-cl_gene Pathway No. : 295	0.0005556	0.5	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate Nucleotides Product lambda-cl_mRNA
	Basal transcription of the Lambda cl gene. Rates from Box 1 Elowitz, M. et al. (2000) Nature 403:335-338
2	Lambda-cl_ operator_1st_ bound  / Lambda-cl_ transcription	Repressilator Accession No. : 68	Lambda-cl_gene Pathway No. : 295	0.0005556	0.0005	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate Nucleotides Product lambda-cl_mRNA
	Transcription of the Lambda cl gene with only one of its promoter sites activated. Rates from Box 1 Elowitz, M. et al. (2000) Nature 403:335-338
3	Lambda-cl_ operator_2nd_ bound  / Lambda-cl_ transcription1	Repressilator Accession No. : 68	Lambda-cl_gene Pathway No. : 295	0.0005556	0.0005	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate Nucleotides Product lambda-cl_mRNA
	Transcription of the Lambda cl gene with both its promoter sites activated. Rates from Box 1 Elowitz, M. et al. (2000) Nature 403:335-338
4	Lac_operator  / Lac_basal_ transcription	Repressilator Accession No. : 68	Lac_gene Pathway No. : 296	0.0005556	0.5	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate Nucleotides Product lac_mRNA
	Basal transcription of the Lac gene. Rates from Box 1 Elowitz, M. et al. (2000) Nature 403:335-338
5	Lac_operator_ 1st_bound  / Lac_ transcription	Repressilator Accession No. : 68	Lac_gene Pathway No. : 296	0.0005556	0.0005	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate Nucleotides Product lac_mRNA
	Transcription of the lac gene with only one of its promoter sites activated. Rates from Box 1 Elowitz, M. et al. (2000) N Nature 403: 335-338
6	Lac_operator_ 2nd_bound  / Lac_ transcription1	Repressilator Accession No. : 68	Lac_gene Pathway No. : 296	0.0005556	0.0005	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate Nucleotides Product lac_mRNA
	Transcription of the Lac gene with both its promoter sites activated. Rates from Box 1 Elowitz, M. et al. (2000) Nature 403: 335-338
7	TetR_operator  / TetR_basal_ transcription	Repressilator Accession No. : 68	TetR_gene Pathway No. : 297	0.0005556	0.5	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate Nucleotides Product tetR_mRNA
	Basal transcription of the Tet R gene. Rates from Box 1 Elowitz, M. et al. (2000) Nature 403:335-338
8	TetR_operator_ 1st_bound  / TetR_ transcription	Repressilator Accession No. : 68	TetR_gene Pathway No. : 297	0.0005556	0.0005	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate Nucleotides Product tetR_mRNA
	Transcription of the TetR gene with only one of its promoter sites activated. Rates from Box 1 Elowitz, M. et al (2000) Nature 403:335-338
9	TetR_operator_ 2nd_bound  / TetR_ transcription1	Repressilator Accession No. : 68	TetR_gene Pathway No. : 297	0.0005556	0.0005	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate Nucleotides Product tetR_mRNA
	Transcription of the TetR gene with both its promoter sites activated. Rates from Box 1 Elowitz, M. et al. (2000) Nature 403:335-338