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


Gensor Unit Map          
AceA pyruvate aceBAK_mRNA glyoxylate isocitrate dehydrogenase-P isocitrate-dehydrogenase succinate phosphate IclR iclR IclR aceBAK coenzyme A AceB AceK acetyl-CoA I-CIT pyruvate malate IclR glyoxylate iclR_mRNA


Gensor Unit       
Name: IclR
Description: Molecular biology level
Detailed: In the presence of pyruvate, IclR negatively regulates the expression of genes required for tricarboxylic acid cycle and glyoxylate cycle and for regulation of them. Under these conditions, IclR is modified to IclR-pyruvate, binds its target sites preventing the expression of its regulated genes. In the absence of pyruvate, Iclr unbinds its target sites enabling the expression of its regulated genes.
Less detailed: In the presence of pyruvate IclR negatively regulates the expression of genes needed for tricarboxylic acid cycle and glyoxylate cycle and for regulation of them.

Physiology level
Detailed: The presence of pyruvate inhibits the expression of genes involved with tricarboxylic acid cycle and glyoxylate cycle and for regulation of these processes. Under these conditions, the genes necessary for conversion of D-threo-isocitrate to glyoxylate, conversion of glyoxalate and acetyl CoA to L-malate and control of isocitrate dehydrogenase phosporylation, are not expressed.
Less detailed: The presence of pyruvate inhibits the expression of genes needful for conversion of D-threo-isocitrate to glyoxylate, conversion of glyoxalate and acetyl CoA to L-malate and control of isocitrate dehydrogenase phosporylation.
Classification:
Groups: Transcription
Energy production and conversion
Signal transduction mechanisms
Gene Ontology Terms (GO): biological_process GO:0019752 - carboxylic acid metabolic process
GO:0016311 - dephosphorylation
GO:0006006 - glucose metabolic process
GO:0006097 - glyoxylate cycle
GO:0008152 - metabolic process
GO:0045892 - negative regulation of transcription, DNA-templated
Read more >
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0016208 - AMP binding
GO:0005524 - ATP binding
GO:0003677 - DNA binding
GO:0003700 - DNA-binding transcription factor activity
GO:0008772 - [isocitrate dehydrogenase (NADP+)] kinase activity
GO:0003824 - catalytic activity
GO:0043169 - cation binding
Read more >
Components:
  Function Name Type
  protein AceA protein
  protein AceB protein
  protein AceK protein
  simple_molecule I-CIT simple_molecule
  protein IclR protein
  complex IclR-glyoxylate complex
  complex IclR-pyruvate complex
  gene aceBAK gene
  RNA aceBAK_mRNA RNA
  simple_molecule acetyl-CoA simple_molecule
  simple_molecule coenzyme A simple_molecule
  simple_molecule glyoxylate simple_molecule
  gene iclR gene
  RNA iclR_mRNA RNA
  simple_molecule isocitrate dehydrogenase-P simple_molecule
  simple_molecule isocitrate-dehydrogenase simple_molecule
  simple_molecule malate simple_molecule
  simple_molecule phosphate simple_molecule
  simple_molecule pyruvate simple_molecule
  simple_molecule succinate simple_molecule


Reactions       
Showing 14 reactions
pyruvate + IclR IclR-pyruvate
Name: pyruvate + IclR -> IclR-pyruvate
Description: Reaction transforming pyruvate, IclR into IclR-pyruvate
Type: state transition
Pathway Components: pyruvate + IclR -> IclR-pyruvate
Components:
Function Name Type
reactant IclR protein
product IclR-pyruvate complex
reactant pyruvate simple_molecule
IclR-pyruvate aceBAK aceBAK_mRNA
Name: aceBAK -> aceBAK_mRNA
Description: Transcription of transcription unit aceBAK. Reaction inhibition by IclR-pyruvate.
Type: transcription
Pathway Components: aceBAK - IclR-pyruvate -> aceBAK_mRNA
Components:
Function Name Type
inhibitor IclR-pyruvate complex
reactant aceBAK gene
product aceBAK_mRNA RNA
IclR-pyruvate iclR iclR_mRNA
Name: iclR -> iclR_mRNA
Description: Transcription of transcription unit iclR. Reaction inhibition by IclR-pyruvate.
Type: transcription
Pathway Components: iclR - IclR-pyruvate -> iclR_mRNA
Components:
Function Name Type
inhibitor IclR-pyruvate complex
reactant iclR gene
product iclR_mRNA RNA
glyoxylate + IclR IclR-glyoxylate
Name: glyoxylate + IclR -> IclR-glyoxylate
Description: Reaction transforming glyoxylate, IclR into IclR-glyoxylate
Type: state transition
Pathway Components: glyoxylate + IclR -> IclR-glyoxylate
Components:
Function Name Type
reactant IclR protein
product IclR-glyoxylate complex
reactant glyoxylate simple_molecule
iclR_mRNA IclR
Name: iclR_mRNA -> IclR
Description: Translation of IclR
Type: translation
Pathway Components: iclR_mRNA -> IclR
Components:
Function Name Type
product IclR protein
reactant iclR_mRNA RNA
aceBAK_mRNA AceB
Name: aceBAK_mRNA -> AceB
Description: Translation of AceB
Type: translation
Pathway Components: aceBAK_mRNA -> AceB
Components:
Function Name Type
product AceB protein
reactant aceBAK_mRNA RNA
AceB glyoxylate + acetyl-CoA coenzyme A + malate
Name: glyoxylate + acetyl-CoA -> coenzyme A + malate
Description: Reaction transforming glyoxylate, acetyl-CoA into coenzyme A, malate
Type: state transition
Pathway Components: glyoxylate + acetyl-CoA - AceB -> coenzyme A + malate
Components:
Function Name Type
catalyzer AceB protein
reactant acetyl-CoA simple_molecule
product coenzyme A simple_molecule
reactant glyoxylate simple_molecule
product malate simple_molecule
aceBAK_mRNA AceA
Name: aceBAK_mRNA -> AceA
Description: Translation of AceA
Type: translation
Pathway Components: aceBAK_mRNA -> AceA
Components:
Function Name Type
product AceA protein
reactant aceBAK_mRNA RNA
AceA succinate I-CIT glyoxylate + succinate
Name: I-CIT -> glyoxylate + succinate
Description: Reaction transforming I-CIT into glyoxylate, succinate
Type: state transition
Pathway Components: I-CIT - AceA - succinate -> glyoxylate + succinate
Components:
Function Name Type
catalyzer AceA protein
reactant I-CIT simple_molecule
product glyoxylate simple_molecule
inhibitor succinate simple_molecule
product succinate simple_molecule
aceBAK_mRNA AceK
Name: aceBAK_mRNA -> AceK
Description: Translation of AceK
Type: translation
Pathway Components: aceBAK_mRNA -> AceK
Components:
Function Name Type
product AceK protein
reactant aceBAK_mRNA RNA
AceK glyoxylate isocitrate-dehydrogenase isocitrate dehydrogenase-P
Name: isocitrate-dehydrogenase -> isocitrate dehydrogenase-P
Description: Reaction transforming isocitrate-dehydrogenase into isocitrate dehydrogenase-P
Type: state transition
Pathway Components: isocitrate-dehydrogenase - AceK - glyoxylate -> isocitrate dehydrogenase-P
Components:
Function Name Type
catalyzer AceK protein
inhibitor glyoxylate simple_molecule
product isocitrate dehydrogenase-P simple_molecule
reactant isocitrate-dehydrogenase simple_molecule
AceK isocitrate dehydrogenase-P isocitrate-dehydrogenase + phosphate
Name: isocitrate dehydrogenase-P -> isocitrate-dehydrogenase + phosphate
Description: Reaction transforming isocitrate dehydrogenase-P into isocitrate-dehydrogenase, phosphate
Type: state transition
Pathway Components: isocitrate dehydrogenase-P - AceK -> isocitrate-dehydrogenase + phosphate
Components:
Function Name Type
catalyzer AceK protein
reactant isocitrate dehydrogenase-P simple_molecule
product isocitrate-dehydrogenase simple_molecule
product phosphate simple_molecule
malate I-CIT
Name: malate -> I-CIT
Description: Transformation of malate into I-CIT by one or more reactions not shown.
Type: complementary pathway reaction
Pathway Components: malate / MALATE-DEH-RXN / CITSYN-RXN / ACONITATEDEHYDR-RXN / ACONITATEHYDR-RXN / I-CIT
Components:
Function Name Type
product I-CIT simple_molecule
reactant malate simple_molecule
acetyl-CoA I-CIT
Name: acetyl-CoA -> I-CIT
Description: Transformation of acetyl-CoA into I-CIT by one or more reactions not shown.
Type: complementary pathway reaction
Pathway Components: acetyl-CoA / CITSYN-RXN / ACONITATEDEHYDR-RXN / ACONITATEHYDR-RXN / I-CIT
Components:
Function Name Type
product I-CIT simple_molecule
reactant acetyl-CoA simple_molecule



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