Bringing metabolic networks to life: integration of kinetic, metabolic, and proteomic data

Table 1 Empirical parameter ranges

Parameter		⟨x⟩	σ _x		e^⟨x⟩	$e^{σ_{x}}$	# samples	ref.
Turnover rate	k ^cat	1.95	3.3	7.0	s^-1	27.1	7559	[18]
Substrate constant	k ^M	-1.77	3.0	0.17	mM	20.1	44766	[18]
Inhibition constant	k ^I	-2.81	4.1	0.06	mM	60.3	4338	[18]
Energy constant	k ^G	-0.24	0.18	0.79		1.2	142	[23]
Equilibrium constant	k ^eq	-	5.4	-		212	1309	[19]
Protein molecules/cell		7.82	1.56	2480		4.7	3868	[20]
Protein concentration	E _l	-10.23	1.56	3.6·10^-5	mM	4.7	3868	[20]
Metab. concentration	c_i	-1.97	1.94	0.14	mM	7.0	49	[24]

Typical ranges of system parameters (top) and state parameters (bottom). Different types of parameters show specific mean values and standard deviations. Energy constants were predicted from the molecule structures, all other data were obtained from experiments. Numbers of protein molecules were measured in the yeast S. cerevisiae. The symbols ⟨x⟩ and σ_xdenote mean values and standard deviations of the natural logarithms, in data sets of different sizes ("# samples"). These values can be used to predefine a prior distribution for model parameters. The exponential values exp(⟨x⟩) and exp(σ_x) denote, respectively, the geometric mean and a typical uncertainty factor of the parameter type.

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