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Molecule Parameter List for P_RNAP

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

P_RNAP 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	0	0	1	1

Accession and Pathway Details

Accession Name	Accession No.	Accession Type	Pathway Link
Kierzek_LacZ	29	Pathway	LacZ
An approximation to the Kierzek AM. et al. J Biol Chem. (2001) 276(11):8165-72 model of LacZ gene expression in E. coli. They use stochastic simulation and model cell growth. Despite these discrepancies, the continuous fixed size model is within a factor of 3 of their results. Parameter values are identical.

P_RNAP acting as a Molecule in  Kierzek_LacZ Network

Name	Accession Name	Pathway Name	Initial Conc. (uM)	Volume (fL)	Buffered
P_RNAP	Kierzek_LacZ Accession No. : 29	LacZ Pathway No. : 141	0	0.99997	No

P_RNAP acting as a Substrate in a reaction in  Kierzek_LacZ 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
Isomerization	Kierzek_LacZ Accession No. : 29	LacZ Pathway No. : 141	1 (s^-1)	0 (s^-1)	-	-	Substrate P_RNAP Product TrRNAP
Equation 3 from Kierzek et al. Isomerization of closed binary complex to open binary complex.

P_RNAP acting as a Product in a reaction in  Kierzek_LacZ 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
RNAPol_binding	Kierzek_LacZ Accession No. : 29	LacZ Pathway No. : 141	99.9927 (uM^-1 s^-1)	10 (s^-1)	Kd(bf) = 0.1(uM)	-	Substrate P RNAP Product P_RNAP
Equations 1 and 2 from Kierzek et al. Reversible RNA polymerase binding.