Quantitative indices of autophagy activity from minimal models

Table 1 Parameters in the model

Symbol	Definition	Unit	Value	Reference
$r_{g}^{(0)}$	Rate constant for autophagosome formation (normal value)	s^− 1	* 1.12 × 10^− 5	[12], [13], [14]
k _g	Constant for autophagosome formation (ATP dependency)	mM	* 4.01	[12], [14]
p _g	Constant for autophagosome formation (ATP dependency)	mM	* 3.00	[12], [14]
a _g	Constant for autophagosome formation (amino acids dependency)	mM	4.50
γ _g	Constant for autophagosome formation (amino acids dependency)	(unitless)	* 1.22	[13]
ξ _g	Constant for autophagosome formation (amino acids dependency)	mM^− 1	* 7.49 × 10^− 2	[13]
r _l	Rate constant for autolysosome formation	s^− 1	* 2.47 × 10^− 5	[12], [14]
k _l	Constant for autolysosome formation (ATP dependency)	mM	* 4.01	[12], [14]
p _l	Constant for autolysosome formation (ATP dependency)	mM	* 3.00	[12], [14]
r _h	Rate constant for intralysosomal hydrolysis	s^− 1	* 1.39 × 10^− 5	[12], [14]
δ _h	Exponent for intralysosomal hydrolysis (ATP dependency)	(unitless)	* 7.24 × 10^− 1	[12], [14]
k _h	Constant for intralysosomal hydrolysis (ATP dependency)	mM	* 2.99	[12], [14]
r _s	Rate constant for protein/organelle synthesis	mM ⋅ s^− 1	* 1.48 × 10^− 5	[34]
k _s	Constant for protein/organelle synthesis (amino acids dependency)	mM	* 1.77 × 10¹	[34]
$C_{A}^{(m)}$	ATP concentration corresponding to maximal protein/organelle synthesis rate	mM	3.00

Parameters with asterisks (*) are fixed, determined from biological experiments [12–14, 34]. Those without asterisks are adjustable, depending on experimental setups.

ISSN: 1742-4682