RegulonDB RegulonDB

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


Gensor Unit Map          
IdnR IdnD 5-ketogluconate_Ext IdnT IdnO IdnR This Gensor Unit is not yet available idnDOTR_mRNA This Gensor Unit is not yet available 5-ketogluconate idnK_mRNA GntK IdnR idnK This Gensor Unit is not yet available idonate GntU idonate_Ext idnDOTR 5-ketogluconate IdnK gluconate_Ext gluconate 6-p gluconate This Gensor Unit is not yet available idonate


Gensor Unit       
Name: IdnR
Description: Molecular biology level
Detailed: In the presence of gluconate, idonate or ketogluconate, IdnR positively regulates the expression of genes required for idonate transport and catabolic process and negatively regulates the expression of genes required for gluconate transport and catabolic process. Under these conditions gluconate and idonate are both independently transformed to ketogluconate and IdnR is modified to IdnR-ketogluconate, binds its target sites enabling its own expression and the expression of some of its regulated genes and preventing the expression of other genes regulated by it. In the absence of idonate, gluconate and ketogluconate, IdnR unbinds its target sites enabling in some cases and preventing in other the expression of its regulated genes.
Less detailed: In the presence of idonate or gluconate, IdnR positively regulates the expression of genes needed for idonate transport and catabolic process and negatively regulates the expression of genes needed for gluconate transport and catabolic process.

Physiology level
Detailed: The presence of idonate or gluconate induces the expression of genes involved with idonate transport and catabolic process and inhibits the expression of genes required for gluconate transport and catabolic process. Under these conditions the genes necessary for idonate and gluconate transformation to ketogluconate are expressed, and the genes necessary for gluconate transport and conversion to gluconate-6-phosphate are not expressed.
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Classification:
Groups: Lipid transport and metabolism
Transcription
Carbohydrate transport and metabolism
Amino acid transport and metabolism
Gene Ontology Terms (GO): biological_process GO:0046177 - D-gluconate catabolic process
GO:0019521 - D-gluconate metabolic process
GO:0046183 - L-idonate catabolic process
GO:0015726 - L-idonate transmembrane transport
GO:0005975 - carbohydrate metabolic process
GO:0008643 - carbohydrate transport
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cellular_component GO:0005829 - cytosol
GO:0016021 - integral component of membrane
GO:0005887 - integral component of plasma membrane
GO:0016020 - membrane
GO:0005886 - plasma membrane
molecular_function GO:0005524 - ATP binding
GO:0003677 - DNA binding
GO:0050572 - L-idonate 5-dehydrogenase activity
GO:0015568 - L-idonate transmembrane transporter activity
GO:0005402 - carbohydrate:cation symporter activity
GO:0008874 - gluconate 5-dehydrogenase activity
GO:0015128 - gluconate transmembrane transporter activity
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Components:
  Function Name Type
  simple_molecule 5-ketogluconate simple_molecule
  simple_molecule 5-ketogluconate_Ext simple_molecule
  simple_molecule 6-p gluconate simple_molecule
  protein GntK protein
  protein GntU protein
  protein IdnD protein
  protein IdnK protein
  protein IdnO protein
  protein IdnR protein
  complex IdnR-5-ketogluconate complex
  complex IdnR-idonate complex
  protein IdnT protein
  simple_molecule gluconate simple_molecule
  simple_molecule gluconate_Ext simple_molecule
  gene gntK gene
  gene gntKU gene
  RNA gntKU_mRNA RNA
  RNA gntK_mRNA RNA
  gene idnDOTR gene
  RNA idnDOTR_mRNA RNA
  gene idnK gene
  RNA idnK_mRNA RNA
  simple_molecule idonate simple_molecule
  simple_molecule idonate_Ext simple_molecule


Reactions       
Showing 22 reactions
5-ketogluconate + IdnR IdnR-5-ketogluconate
Name: 5-ketogluconate + IdnR -> IdnR-5-ketogluconate
Description: Reaction transforming 5-ketogluconate, IdnR into IdnR-5-ketogluconate
Type: state transition
Pathway Components: 5-ketogluconate + IdnR -> IdnR-5-ketogluconate
Components:
Function Name Type
reactant 5-ketogluconate simple_molecule
reactant IdnR protein
product IdnR-5-ketogluconate complex
IdnR-5-ketogluconate idnDOTR idnDOTR_mRNA
Name: idnDOTR -> idnDOTR_mRNA
Description: Transcription of transcription unit idnDOTR. Reaction activation by IdnR-5-ketogluconate.
Type: transcription
Pathway Components: idnDOTR - IdnR-5-ketogluconate -> idnDOTR_mRNA
Components:
Function Name Type
activator IdnR-5-ketogluconate complex
reactant idnDOTR gene
product idnDOTR_mRNA RNA
IdnR-5-ketogluconate gntK gntK_mRNA
Name: gntK -> gntK_mRNA
Description: Transcription of transcription unit gntK. Reaction inhibition by IdnR-5-ketogluconate.
Type: transcription
Pathway Components: gntK - IdnR-5-ketogluconate -> gntK_mRNA
Components:
Function Name Type
inhibitor IdnR-5-ketogluconate complex
reactant gntK gene
product gntK_mRNA RNA
IdnR-5-ketogluconate gntKU gntKU_mRNA
Name: gntKU -> gntKU_mRNA
Description: Transcription of transcription unit gntKU. Reaction inhibition by IdnR-5-ketogluconate.
Type: transcription
Pathway Components: gntKU - IdnR-5-ketogluconate -> gntKU_mRNA
Components:
Function Name Type
inhibitor IdnR-5-ketogluconate complex
reactant gntKU gene
product gntKU_mRNA RNA
idonate + IdnR IdnR-idonate
Name: idonate + IdnR -> IdnR-idonate
Description: Reaction transforming idonate, IdnR into IdnR-idonate
Type: state transition
Pathway Components: idonate + IdnR -> IdnR-idonate
Components:
Function Name Type
reactant IdnR protein
product IdnR-idonate complex
reactant idonate simple_molecule
IdnR idnK idnK_mRNA
Name: idnK -> idnK_mRNA
Description: Transcription of transcription unit idnK. Reaction activation by IdnR.
Type: transcription
Pathway Components: idnK - IdnR -> idnK_mRNA
Components:
Function Name Type
activator IdnR protein
reactant idnK gene
product idnK_mRNA RNA
idnDOTR_mRNA IdnD
Name: idnDOTR_mRNA -> IdnD
Description: Translation of IdnD
Type: translation
Pathway Components: idnDOTR_mRNA -> IdnD
Components:
Function Name Type
product IdnD protein
reactant idnDOTR_mRNA RNA
IdnD idonate 5-ketogluconate
Name: idonate -> 5-ketogluconate
Description: Reaction transforming idonate into 5-ketogluconate
Type: state transition
Pathway Components: idonate - IdnD -> 5-ketogluconate
Components:
Function Name Type
product 5-ketogluconate simple_molecule
catalyzer IdnD protein
reactant idonate simple_molecule
idnDOTR_mRNA IdnO
Name: idnDOTR_mRNA -> IdnO
Description: Translation of IdnO
Type: translation
Pathway Components: idnDOTR_mRNA -> IdnO
Components:
Function Name Type
product IdnO protein
reactant idnDOTR_mRNA RNA
IdnO gluconate 5-ketogluconate
Name: gluconate -> 5-ketogluconate
Description: Reaction transforming gluconate into 5-ketogluconate
Type: state transition
Pathway Components: gluconate - IdnO -> 5-ketogluconate
Components:
Function Name Type
product 5-ketogluconate simple_molecule
catalyzer IdnO protein
reactant gluconate simple_molecule
idnDOTR_mRNA IdnT
Name: idnDOTR_mRNA -> IdnT
Description: Translation of IdnT
Type: translation
Pathway Components: idnDOTR_mRNA -> IdnT
Components:
Function Name Type
product IdnT protein
reactant idnDOTR_mRNA RNA
IdnT 5-ketogluconate_Ext 5-ketogluconate
Name: 5-ketogluconate_Ext -> 5-ketogluconate
Description: Transport of 5-ketogluconate_Ext through a bacterial membrane, leading to the presence of 5-ketogluconate inside the cell.
Type: transport
Pathway Components: 5-ketogluconate_Ext - IdnT -> 5-ketogluconate
Components:
Function Name Type
product 5-ketogluconate simple_molecule
reactant 5-ketogluconate_Ext simple_molecule
catalyzer IdnT protein
GntU IdnT gluconate_Ext gluconate
Name: gluconate_Ext -> gluconate
Description: Transport of gluconate_Ext through a bacterial membrane, leading to the presence of gluconate inside the cell.
Type: transport
Pathway Components: gluconate_Ext - GntU - IdnT -> gluconate
Components:
Function Name Type
catalyzer GntU protein
catalyzer IdnT protein
product gluconate simple_molecule
reactant gluconate_Ext simple_molecule
IdnT idonate_Ext idonate
Name: idonate_Ext -> idonate
Description: Transport of idonate_Ext through a bacterial membrane, leading to the presence of idonate inside the cell.
Type: transport
Pathway Components: idonate_Ext - IdnT -> idonate
Components:
Function Name Type
catalyzer IdnT protein
product idonate simple_molecule
reactant idonate_Ext simple_molecule
idnDOTR_mRNA IdnR
Name: idnDOTR_mRNA -> IdnR
Description: Translation of IdnR
Type: translation
Pathway Components: idnDOTR_mRNA -> IdnR
Components:
Function Name Type
product IdnR protein
reactant idnDOTR_mRNA RNA
idnK_mRNA IdnK
Name: idnK_mRNA -> IdnK
Description: Translation of IdnK
Type: translation
Pathway Components: idnK_mRNA -> IdnK
Components:
Function Name Type
product IdnK protein
reactant idnK_mRNA RNA
GntK IdnK gluconate 6-p gluconate
Name: gluconate -> 6-p gluconate
Description: Reaction transforming gluconate into 6-p gluconate
Type: state transition
Pathway Components: gluconate - GntK - IdnK -> 6-p gluconate
Components:
Function Name Type
product 6-p gluconate simple_molecule
catalyzer GntK protein
catalyzer IdnK protein
reactant gluconate simple_molecule
gntK_mRNA GntK
Name: gntK_mRNA -> GntK
Description: Translation of GntK
Type: translation
Pathway Components: gntK_mRNA -> GntK
Components:
Function Name Type
product GntK protein
reactant gntK_mRNA RNA
gntKU_mRNA GntK
Name: gntKU_mRNA -> GntK
Description: Translation of GntK
Type: translation
Pathway Components: gntKU_mRNA -> GntK
Components:
Function Name Type
product GntK protein
reactant gntKU_mRNA RNA
gntKU_mRNA GntU
Name: gntKU_mRNA -> GntU
Description: Translation of GntU
Type: translation
Pathway Components: gntKU_mRNA -> GntU
Components:
Function Name Type
product GntU protein
reactant gntKU_mRNA RNA
5-ketogluconate gluconate
Name: 5-ketogluconate -> gluconate
Description: Transformation of 5-ketogluconate into gluconate by one or more reactions not shown.
Type: complementary pathway reaction
Pathway Components: 5-ketogluconate / 1.1.1.215-RXN / gluconate
Components:
Function Name Type
reactant 5-ketogluconate simple_molecule
product gluconate simple_molecule
5-ketogluconate idonate
Name: 5-ketogluconate -> idonate
Description: Transformation of 5-ketogluconate into idonate by one or more reactions not shown.
Type: complementary pathway reaction
Pathway Components: 5-ketogluconate / RXN0-7020 / RXN0-7021 / idonate
Components:
Function Name Type
reactant 5-ketogluconate simple_molecule
product idonate simple_molecule
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