Table 2.

Reactions in the heat shock response model of E. coli

	Reaction	Transition
R1	$\varnothing \stackrel{\text{gene}}{\to }{S}_8$	Recombinant protein synthesis
R2	S2→S3	Holoenzyme association
R3	S3→S2	Holoenzyme disassociation
R4	$\varnothing \stackrel{S_1}{\to }{S}_2$	σ32 translation
R5	$S_3\stackrel{\text{gene}}{\to }{S}_2+S_5$	GroEL synthesis
R6	$S_3\stackrel{\text{gene}}{\to }{S}_2+S_4$	FtsH synthesis
R7	$S_3\stackrel{\text{gene}}{\to }{S}_2+S_6$	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	$\varnothing \stackrel{\text{gene}}{\to }{S}_1$	σ32 transcription
R14	S1→∅	σ32 mRNA decay
R15	$S_7\stackrel{S_4}{\to }{S}_6$	σ32 degradation
R16	$S_5\to \varnothing$	GroEL degradation
R17	$S_6\to \varnothing$	J-disassociation
R18	$S_4\to \varnothing$	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.