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Molecule Parameter List for lac_mRNA

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

lac_mRNA 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	1	0	3	1	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.

lac_mRNA acting as a Molecule in  Repressilator Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
lac_mRNA	Repressilator Accession No. : 68	Lac_gene Pathway No. : 296	0	3	No
The m-RNA transcribed by the lac operator Elowitz, M. et al. (2000) Nature 403:335-338

lac_mRNA acting as an Enzyme in  Repressilator Network

Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
lac_mRNA / lac_translation	Repressilator Accession No. : 68	Lac_gene Pathway No. : 296	0.000555595	0.167	4	Classical Michaelis-Menten V = Etot.S.Kcat/Km+S	Substrate Amino_Acids Product Lac
Translation of the lac mRNA. Rates from Box 1 Elowitz, M. et al (2000) Nature 403: 335-338

lac_mRNA acting as a Product of an Enzyme in  Repressilator Network

	Enzyme Molecule / Enzyme Activity	Accession Name	Pathway Name	Km (uM)	kcat (s^-1)	Ratio	Enzyme Type	Reagents
1	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
2	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
3	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

lac_mRNA acting as a Substrate in a reaction in  Repressilator 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
lac_mRNA_ degradation	Repressilator Accession No. : 68	Lac_gene Pathway No. : 296	0.0058 (s^-1)	0 (s^-1)	-	-	Substrate lac_mRNA Product Degraded_lac_ mRNA
This reaction denotes the degradation of the lac m-RNA, the half life of which is two minutes. t1/2 = 0.693/k where k denotes kf Elowitz, M. et al. (2000) Nature 403:335-338