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PrpR Genetic Sensory Response Unit in Escherichia coli K-12 genome


Gensor Unit Map          
PrpC (2S,3S)-2-methylcitrate citrate PrpB prpBCDE_mRNA propanoyl-CoA succinate 2-methylaconitate prpR methylisocitrate diphosphate (2S,3S)-2-methylcitrate coenzyme A PrpR PrpD PrpR propanoate oxalacetate PrpE prpBCDE acetyl-CoA prpR_mRNA pyruvate coenzyme A


Gensor Unit       
Name: PrpR
Description: Molecular biology level
Detailed: In the presence of propanoate, PrpR positively regulates the expression of genes required for propanoate catabolic process. Under these conditions, propanoate is transformed to 2-methylcitrate, PrpR is modified to PrpR-2-methylcitrate, binds its target sites preventing its own expression and enabling the expression of its regulated genes. In the absence of propanoate, PrpR unbinds its target sites enabling its own expression and preventing the expression of its regulated genes.
Less detailed: In the presence of propanoate, PrpR positively regulates the expression of genes needed for propanoate catabolic process.

Physiology level
Detailed: The presence of propanoate induces the expression of genes involved with propanoate catabolic process. Under these conditions the genes necessary for conversion of propanoate to pyruvate and succinate via 2-methylcitrate are expressed.
Less detailed: The presence of propanoate induces the expression of genes needful for conversion of propanoate to pyruvate and succinate.
Classification:
Groups: Lipid transport and metabolism
Transcription
Carbohydrate transport and metabolism
Energy production and conversion
Gene Ontology Terms (GO): biological_process GO:0008152 - metabolic process
GO:0045892 - negative regulation of transcription, DNA-templated
GO:0000160 - phosphorelay signal transduction system
GO:0045893 - positive regulation of transcription, DNA-templated
GO:0019629 - propionate catabolic process, 2-methylcitrate cycle
GO:0019679 - propionate metabolic process, methylcitrate cycle
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cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0051537 - 2 iron, 2 sulfur cluster binding
GO:0047547 - 2-methylcitrate dehydratase activity
GO:0050440 - 2-methylcitrate synthase activity
GO:0005524 - ATP binding
GO:0003677 - DNA binding
GO:0003700 - DNA-binding transcription factor activity
GO:0003994 - aconitate hydratase activity
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Components:
  Function Name Type
  simple_molecule (2S,3S)-2-methylcitrate simple_molecule
  simple_molecule 2-methylaconitate simple_molecule
  protein PrpB protein
  protein PrpC protein
  protein PrpD protein
  protein PrpE protein
  protein PrpR protein
  complex PrpR-(2S,3S)-2-methylcitrate complex
  simple_molecule acetyl-CoA simple_molecule
  simple_molecule citrate simple_molecule
  simple_molecule coenzyme A simple_molecule
  simple_molecule diphosphate simple_molecule
  simple_molecule methylisocitrate simple_molecule
  simple_molecule oxalacetate simple_molecule
  simple_molecule propanoate simple_molecule
  simple_molecule propanoyl-CoA simple_molecule
  gene prpBCDE gene
  RNA prpBCDE_mRNA RNA
  gene prpR gene
  RNA prpR_mRNA RNA
  simple_molecule pyruvate simple_molecule
  simple_molecule succinate simple_molecule


Reactions       
Showing 14 reactions
(2S,3S)-2-methylcitrate + PrpR PrpR-(2S,3S)-2-methylcitrate
Name: (2S,3S)-2-methylcitrate + PrpR -> PrpR-(2S,3S)-2-methylcitrate
Description: Reaction transforming (2S,3S)-2-methylcitrate, PrpR into PrpR-(2S,3S)-2-methylcitrate
Type: state transition
Pathway Components: (2S,3S)-2-methylcitrate + PrpR -> PrpR-(2S,3S)-2-methylcitrate
Components:
Function Name Type
reactant (2S,3S)-2-methylcitrate simple_molecule
reactant PrpR protein
product PrpR-(2S,3S)-2-methylcitrate complex
PrpR-(2S,3S)-2-methylcitrate prpBCDE prpBCDE_mRNA
Name: prpBCDE -> prpBCDE_mRNA
Description: Transcription of transcription unit prpBCDE. Reaction activation by PrpR-(2S,3S)-2-methylcitrate.
Type: transcription
Pathway Components: prpBCDE - PrpR-(2S,3S)-2-methylcitrate -> prpBCDE_mRNA
Components:
Function Name Type
activator PrpR-(2S,3S)-2-methylcitrate complex
reactant prpBCDE gene
product prpBCDE_mRNA RNA
PrpR-(2S,3S)-2-methylcitrate prpR prpR_mRNA
Name: prpR -> prpR_mRNA
Description: Transcription of transcription unit prpR. Reaction inhibition by PrpR-(2S,3S)-2-methylcitrate.
Type: transcription
Pathway Components: prpR - PrpR-(2S,3S)-2-methylcitrate -> prpR_mRNA
Components:
Function Name Type
inhibitor PrpR-(2S,3S)-2-methylcitrate complex
reactant prpR gene
product prpR_mRNA RNA
prpBCDE_mRNA PrpB
Name: prpBCDE_mRNA -> PrpB
Description: Translation of PrpB
Type: translation
Pathway Components: prpBCDE_mRNA -> PrpB
Components:
Function Name Type
product PrpB protein
reactant prpBCDE_mRNA RNA
PrpB methylisocitrate succinate + pyruvate
Name: methylisocitrate -> succinate + pyruvate
Description: Reaction transforming methylisocitrate into succinate, pyruvate
Type: state transition
Pathway Components: methylisocitrate - PrpB -> succinate + pyruvate
Components:
Function Name Type
catalyzer PrpB protein
reactant methylisocitrate simple_molecule
product pyruvate simple_molecule
product succinate simple_molecule
prpBCDE_mRNA PrpC
Name: prpBCDE_mRNA -> PrpC
Description: Translation of PrpC
Type: translation
Pathway Components: prpBCDE_mRNA -> PrpC
Components:
Function Name Type
product PrpC protein
reactant prpBCDE_mRNA RNA
PrpC propanoyl-CoA + oxalacetate (2S,3S)-2-methylcitrate + coenzyme A
Name: propanoyl-CoA + oxalacetate -> (2S,3S)-2-methylcitrate + coenzyme A
Description: Reaction transforming propanoyl-CoA, oxalacetate into (2S,3S)-2-methylcitrate, coenzyme A
Type: state transition
Pathway Components: propanoyl-CoA + oxalacetate - PrpC -> (2S,3S)-2-methylcitrate + coenzyme A
Components:
Function Name Type
product (2S,3S)-2-methylcitrate simple_molecule
catalyzer PrpC protein
product coenzyme A simple_molecule
reactant oxalacetate simple_molecule
reactant propanoyl-CoA simple_molecule
PrpC acetyl-CoA oxalacetate propanoyl-CoA oxalacetate + acetyl-CoA coenzyme A + citrate
Name: oxalacetate + acetyl-CoA -> coenzyme A + citrate
Description: Reaction transforming oxalacetate, acetyl-CoA into coenzyme A, citrate
Type: state transition
Pathway Components: oxalacetate + acetyl-CoA - PrpC - acetyl-CoA - oxalacetate - propanoyl-CoA -> coenzyme A + citrate
Components:
Function Name Type
catalyzer PrpC protein
inhibitor acetyl-CoA simple_molecule
reactant acetyl-CoA simple_molecule
product citrate simple_molecule
product coenzyme A simple_molecule
inhibitor oxalacetate simple_molecule
reactant oxalacetate simple_molecule
inhibitor propanoyl-CoA simple_molecule
prpBCDE_mRNA PrpD
Name: prpBCDE_mRNA -> PrpD
Description: Translation of PrpD
Type: translation
Pathway Components: prpBCDE_mRNA -> PrpD
Components:
Function Name Type
product PrpD protein
reactant prpBCDE_mRNA RNA
PrpD (2S,3S)-2-methylcitrate 2-methylaconitate
Name: (2S,3S)-2-methylcitrate -> 2-methylaconitate
Description: Reaction transforming (2S,3S)-2-methylcitrate into 2-methylaconitate
Type: state transition
Pathway Components: (2S,3S)-2-methylcitrate - PrpD -> 2-methylaconitate
Components:
Function Name Type
reactant (2S,3S)-2-methylcitrate simple_molecule
product 2-methylaconitate simple_molecule
catalyzer PrpD protein
prpBCDE_mRNA PrpE
Name: prpBCDE_mRNA -> PrpE
Description: Translation of PrpE
Type: translation
Pathway Components: prpBCDE_mRNA -> PrpE
Components:
Function Name Type
product PrpE protein
reactant prpBCDE_mRNA RNA
PrpE propanoate + coenzyme A propanoyl-CoA + diphosphate
Name: propanoate + coenzyme A -> propanoyl-CoA + diphosphate
Description: Reaction transforming propanoate, coenzyme A into propanoyl-CoA, diphosphate
Type: state transition
Pathway Components: propanoate + coenzyme A - PrpE -> propanoyl-CoA + diphosphate
Components:
Function Name Type
catalyzer PrpE protein
reactant coenzyme A simple_molecule
product diphosphate simple_molecule
reactant propanoate simple_molecule
product propanoyl-CoA simple_molecule
prpR_mRNA PrpR
Name: prpR_mRNA -> PrpR
Description: Translation of PrpR
Type: translation
Pathway Components: prpR_mRNA -> PrpR
Components:
Function Name Type
product PrpR protein
reactant prpR_mRNA RNA
2-methylaconitate methylisocitrate
Name: 2-methylaconitate -> methylisocitrate
Description: Transformation of 2-methylaconitate into methylisocitrate by one or more reactions not shown.
Type: complementary pathway reaction
Pathway Components: 2-methylaconitate / 4.2.1.99-RXN / methylisocitrate
Components:
Function Name Type
reactant 2-methylaconitate simple_molecule
product methylisocitrate simple_molecule
R1 R2 R3 R4 R5 R6 R7 R8 R9 R10 R11 R12 R13 R14



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