Molecular Module RNAP s32 DnaK RNAP s70 mRNA(s32) mRNA(s70) s32 s70

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Molecular Module RNAP s32 DnaK RNAP s70 mRNA(s32) mRNA(s70) s32 s70 RNAP mRNA (RNAP) The snaps indicate molecular interactions.

s32 s32 s32 FtsH HEAT HEAT Pun Pfold Pun Pfold Pun DnaK DnaK DnaK mRNA(s32) Pun Pfold s32 mRNA (Pfold) Pun Pfold s32 s32 :DnaK Pun DnaK s32 DnaK FtsH DnaK Pfold mRNA (DnaK) mRNA (FtsH)

s70 s32 Pfold DnaK FtsH Promoter gene(s70) Promoter gene(Pfold) mRNA (Pfold) mRNA (s70) mRNA (s32) Promoter gene(s70) Promoter gene(Pfold) Promoter gene(s32) DnaK FtsH mRNA (DnaK) mRNA (FtsH) Promoter gene(DnaK) Promoter gene(FtsH)

Promoter gene(s32) gene(s32) Promoter gene(Pfold) Promoter Promoter RNAP: s70 RNAP: s70 RNAP: s70 Promoter gene(s32) gene(s32) Promoter gene(Pfold) Promoter RNAP: s32 RNAP: s32 Promoter gene(FtsH) Promoter gene(DnaK)

Promoter gene(s70) Promoter gene(Pfold) Promoter gene(s32) Promoter RNAP: s70 RNAP: s70 RNAP: s70 mRNA (s70 ) mRNA (Pfold) mRNA (s32 ) Promoter gene(s70) Promoter gene(Pfold) Promoter gene(s32) RNAP: s32 RNAP: s32 mRNA (DnaK) mRNA (FtsH) Promoter gene(DnaK) Promoter gene(FtsH)

Promoter gene(Pfold) Promoter gene(s70) Promoter gene(s32) Promoter RNAP: s70 RNAP: s70 RNAP: s70 mRNA (s70 ) mRNA (s32 ) mRNA (Pfold) RNAP: s70:Promoter RNAP: s70:Promoter RNAP: s70:Promoter Promoter gene(Pfold) Promoter gene(s70) Promoter gene(s32) RNAP: s32 RNAP: s32 mRNA (DnaK) mRNA (FtsH) RNAP: s32:Promoter RNAP: s32:Promoter Promoter gene(DnaK) Promoter gene(FtsH)

Functional Module Computer module s70 s32 s32 s70 RNAP RNAP RNAP DnaK mRNA (RNAP) RNAP s32 RNAP RNAP mRNA(s32) s32 DnaK mRNA(s70) s70 The CADLIVE graphical notation is employed. The black circle means the binding complex of the components indicated with the arrows.

FB sensor module s32 s32 RNAP DnaK Pun Pfold DnaK mRNA (DnaK) mRNA(s32) Pun Pfold s32 DnaK mRNA (DnaK)

FF sensor module s32 s32 HEAT DnaK RNAP gene(s32) Promoter mRNA(s32)

Actuator module for DnaK synthesis Pun Pfold mRNA (DnaK) mRNA (DnaK) DnaK Promoter gene(DnaK) RNAP: s32 mRNA (DnaK) RNAP: s32 Promoter gene(DnaK) Promoter gene(DnaK)

Actuator module for FtsH synthesis mRNA (Lon) FtsH s32 :DnaK DnaK mRNA (FtsH) FtsH Promoter gene(FtsH) RNAP: s32 mRNA (FtsH) RNAP: s32 Promoter gene(FtsH) Promoter gene(FtsH)

Plant module Pfold Pun DnaK DnaK HEAT Pun Pfold mRNA (Pfold)

SEQ-FB Flux Module (DnaK) Plant module HEAT SEQ-FB Flux Module (DnaK) Pun Pfold mRNA(s32) mRNA (RNAP) s32 RNAP Computer module mRNA (DnaK) DnaK A flux module is constructed by connecting the respective functional modules, where some molecular modules are overlapped. mRNA(s70) s70 DnaK DnaK Pun Pfold mRNA(s70) s70 s32 Promoter gene(DnaK) mRNA (DnaK) DnaK mRNA(s32) mRNA (RNAP) s32 RNAP Pun Pfold (DnaK) DnaK RNAP: s32 Actuator module for DnaK synthesis FB sensor module

DEG-FB Flux Module (FtsH) Computer module DEG-FB Flux Module (FtsH) mRNA(s32) mRNA (RNAP) s32 RNAP mRNA(s70) s70 mRNA(s70) s70 DnaK FtsH s32 s32 :DnaK FtsH RNAP: s32 mRNA (FtsH) DnaK Actuator module for FtsH synthesis Promoter gene(FtsH)

FF Flux Module Feedforward FF sensor module FF Flux Module Feedforward HEAT mRNA(s32) s32 FF s32 mRNA(s32) RNAP s70 mRNA (RNAP) mRNA(s70) DnaK RNAP Computer module

s32 Amplifier Flux Module s32 :DnaK DnaK mRNA (RNAP) mRNA(s70) FtsH Amplifier s32 s70 RNAP HEAT RNAP: s70 mRNA (s32) Promoter gene(s32)