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


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


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.
Less detailed: The presence of idonate or gluconate induces the expression of genes needful for gluconate conversion to ketogluconate and inhibits the expression of genes related with gluconate conversion to gluconate-6-phosphate. Read more >
Classification:
Groups: GUs related to carbon source utilization
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:0046835 - carbohydrate phosphorylation
GO:0008643 - carbohydrate transport
Read more >
cellular_component GO:0005737 - cytoplasm
GO:0016021 - integral component of membrane
GO:0005887 - integral component of plasma membrane
GO:0005886 - plasma membrane
molecular_function 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
GO:0046316 - gluconokinase activity
Read more >
Components: Show/Hide Components Table (27 more...)
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 GntR 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 gntRKU gene
RNA gntRKU_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 26 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 Evidence Reference(s)
reactant 5-ketogluconate simple_molecule nd nd
reactant IdnR protein nd nd
product IdnR-5-ketogluconate complex nd nd
IdnR-5-ketogluconate IdnR-idonate idnDOTR idnDOTR_mRNA
Name: idnDOTR -> idnDOTR_mRNA
Description: Transcription of transcription unit idnDOTR. Reaction activation by IdnR-5-ketogluconate, and IdnR-idonate.
Type: transcription
Pathway Components: idnDOTR - IdnR-5-ketogluconate - IdnR-idonate -> idnDOTR_mRNA
Components:
Function Name Type Evidence Reference(s)
activator IdnR-5-ketogluconate complex nd nd
activator IdnR-idonate complex nd nd
reactant idnDOTR gene nd nd
product idnDOTR_mRNA RNA nd nd
IdnR-5-ketogluconate IdnR-idonate idnK idnK_mRNA
Name: idnK -> idnK_mRNA
Description: Transcription of transcription unit idnK. Reaction activation by IdnR-5-ketogluconate, and IdnR-idonate.
Type: transcription
Pathway Components: idnK - IdnR-5-ketogluconate - IdnR-idonate -> idnK_mRNA
Components:
Function Name Type Evidence Reference(s)
activator IdnR-5-ketogluconate complex nd nd
activator IdnR-idonate complex nd nd
reactant idnK gene nd nd
product idnK_mRNA RNA nd nd
IdnR-5-ketogluconate IdnR-idonate gntRKU gntRKU_mRNA
Name: gntRKU -> gntRKU_mRNA
Description: Transcription of transcription unit gntRKU. Reaction inhibition by IdnR-5-ketogluconate, and IdnR-idonate.
Type: transcription
Pathway Components: gntRKU - IdnR-5-ketogluconate - IdnR-idonate -> gntRKU_mRNA
Components:
Function Name Type Evidence Reference(s)
inhibitor IdnR-5-ketogluconate complex nd nd
inhibitor IdnR-idonate complex nd nd
reactant gntRKU gene nd nd
product gntRKU_mRNA RNA nd nd
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 Evidence Reference(s)
reactant IdnR protein nd nd
product IdnR-idonate complex nd nd
reactant idonate simple_molecule nd nd
IdnR gntK gntK_mRNA
Name: gntK -> gntK_mRNA
Description: Transcription of transcription unit gntK. Reaction inhibition by IdnR.
Type: transcription
Pathway Components: gntK - IdnR -> gntK_mRNA
Components:
Function Name Type Evidence Reference(s)
inhibitor IdnR protein nd nd
reactant gntK gene nd nd
product gntK_mRNA RNA nd nd
IdnR gntKU gntKU_mRNA
Name: gntKU -> gntKU_mRNA
Description: Transcription of transcription unit gntKU. Reaction inhibition by IdnR.
Type: transcription
Pathway Components: gntKU - IdnR -> gntKU_mRNA
Components:
Function Name Type Evidence Reference(s)
inhibitor IdnR protein nd nd
reactant gntKU gene nd nd
product gntKU_mRNA RNA nd nd
idnK_mRNA IdnK
Name: idnK_mRNA -> IdnK
Description: Translation of IdnK
Type: translation
Pathway Components: idnK_mRNA -> IdnK
Components:
Function Name Type Evidence Reference(s)
product IdnK protein nd nd
reactant idnK_mRNA RNA nd nd
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 Evidence Reference(s)
product 6-p gluconate simple_molecule nd nd
catalyzer GntK protein nd nd
catalyzer IdnK protein nd nd
reactant gluconate simple_molecule nd nd
idnDOTR_mRNA IdnD
Name: idnDOTR_mRNA -> IdnD
Description: Translation of IdnD
Type: translation
Pathway Components: idnDOTR_mRNA -> IdnD
Components:
Function Name Type Evidence Reference(s)
product IdnD protein nd nd
reactant idnDOTR_mRNA RNA nd nd
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 Evidence Reference(s)
product 5-ketogluconate simple_molecule nd nd
catalyzer IdnD protein nd nd
reactant idonate simple_molecule nd nd
idnDOTR_mRNA IdnO
Name: idnDOTR_mRNA -> IdnO
Description: Translation of IdnO
Type: translation
Pathway Components: idnDOTR_mRNA -> IdnO
Components:
Function Name Type Evidence Reference(s)
product IdnO protein nd nd
reactant idnDOTR_mRNA RNA nd nd
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 Evidence Reference(s)
product 5-ketogluconate simple_molecule nd nd
catalyzer IdnO protein nd nd
reactant gluconate simple_molecule nd nd
idnDOTR_mRNA IdnT
Name: idnDOTR_mRNA -> IdnT
Description: Translation of IdnT
Type: translation
Pathway Components: idnDOTR_mRNA -> IdnT
Components:
Function Name Type Evidence Reference(s)
product IdnT protein nd nd
reactant idnDOTR_mRNA RNA nd nd
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 Evidence Reference(s)
product 5-ketogluconate simple_molecule nd nd
reactant 5-ketogluconate_Ext simple_molecule nd nd
catalyzer IdnT protein nd nd
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 Evidence Reference(s)
catalyzer GntU protein nd nd
catalyzer IdnT protein nd nd
product gluconate simple_molecule nd nd
reactant gluconate_Ext simple_molecule nd nd
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 Evidence Reference(s)
catalyzer IdnT protein nd nd
product idonate simple_molecule nd nd
reactant idonate_Ext simple_molecule nd nd
idnDOTR_mRNA IdnR
Name: idnDOTR_mRNA -> IdnR
Description: Translation of IdnR
Type: translation
Pathway Components: idnDOTR_mRNA -> IdnR
Components:
Function Name Type Evidence Reference(s)
product IdnR protein nd nd
reactant idnDOTR_mRNA RNA nd nd
gntKU_mRNA GntK
Name: gntKU_mRNA -> GntK
Description: Translation of GntK
Type: translation
Pathway Components: gntKU_mRNA -> GntK
Components:
Function Name Type Evidence Reference(s)
product GntK protein nd nd
reactant gntKU_mRNA RNA nd nd
gntKU_mRNA GntU
Name: gntKU_mRNA -> GntU
Description: Translation of GntU
Type: translation
Pathway Components: gntKU_mRNA -> GntU
Components:
Function Name Type Evidence Reference(s)
product GntU protein nd nd
reactant gntKU_mRNA RNA nd nd
gntRKU_mRNA GntU
Name: gntRKU_mRNA -> GntU
Description: Translation of GntU
Type: translation
Pathway Components: gntRKU_mRNA -> GntU
Components:
Function Name Type Evidence Reference(s)
product GntU protein nd nd
reactant gntRKU_mRNA RNA nd nd
gntRKU_mRNA GntK
Name: gntRKU_mRNA -> GntK
Description: Translation of GntK
Type: translation
Pathway Components: gntRKU_mRNA -> GntK
Components:
Function Name Type Evidence Reference(s)
product GntK protein nd nd
reactant gntRKU_mRNA RNA nd nd
gntRKU_mRNA GntR
Name: gntRKU_mRNA -> GntR
Description: Translation of GntR
Type: translation
Pathway Components: gntRKU_mRNA -> GntR
Components:
Function Name Type Evidence Reference(s)
product GntR protein nd nd
reactant gntRKU_mRNA RNA nd nd
gntK_mRNA GntK
Name: gntK_mRNA -> GntK
Description: Translation of GntK
Type: translation
Pathway Components: gntK_mRNA -> GntK
Components:
Function Name Type Evidence Reference(s)
product GntK protein nd nd
reactant gntK_mRNA RNA nd nd
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 Evidence Reference(s)
reactant 5-ketogluconate simple_molecule nd nd
product gluconate simple_molecule nd nd
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 Evidence Reference(s)
reactant 5-ketogluconate simple_molecule nd nd
product idonate simple_molecule nd nd



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