A multiscale approximation in a heat shock response model of E. coli

BMC Systems Biology

Table 2 Reactions in the heat shock response model of E. coli

	Reaction	Transition
R1	$\emptyset \overset{gene}{\to} S_{8}$	Recombinant protein synthesis
R2	S₂→S₃	Holoenzyme association
R3	S₃→S₂	Holoenzyme disassociation
R4	$\emptyset \overset{S_{1}}{\to} S_{2}$	σ³² translation
R5	$S_{3} \overset{gene}{\to} S_{2} + S_{5}$	GroEL synthesis
R6	$S_{3} \overset{gene}{\to} S_{2} + S_{4}$	FtsH synthesis
R7	$S_{3} \overset{gene}{\to} S_{2} + S_{6}$	J-production
R8	S₇→S₂ + S₆	σ³²-J-disassociation
R9	S₂ + S₆→S₇	σ³²-J-association
R10	S₆ + S₈→S₉	Recombinant protein-J association
R11	S₈→∅	Recombinant protein degradation
R12	S₉→S₆ + S₈	Recombinant protein-J disassociation
R13	$\emptyset \overset{gene}{\to} S_{1}$	σ³² transcription
R14	S₁→∅	σ³² mRNA decay
R15	$S_{7} \overset{S_{4}}{\to} S_{6}$	σ³² degradation
R16	$S_{5} \to \emptyset$	GroEL degradation
R17	$S_{6} \to \emptyset$	J-disassociation
R18	$S_{4} \to \emptyset$	FtsH degradation

In Reaction 5, 6, and 7, we assume that the number of molecules of each gene is 1 and that these reactions are effectively unimolecular. Similarly, Reactions 1 and 13 are treated as production from a source.

ISSN: 1752-0509