RegulonDB RegulonDB

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


Gensor Unit Map          
fixABCX_mRNA vitamin Bt_Ext vitamin Bt CaiC FixC FixB caiTABCDE CaiF diphosphate crotonobetainyl-CoA gamma-butyrobetaine FixA FixX CaiE CaiA carnityl-CoA oxidized ETF CaiD caiTABCDE_mRNA CaiT fixABCX CaiF reduced ETF CaiB vitamin Bt gamma-butyrobetaine-CoA gamma-butyrobetaine_Ext coenzyme A vitamin Bt carnityl-CoA gamma-butyrobetaine-CoA


Gensor Unit       
Name: CaiF
Description: Molecular biology level
Detailed: In the presence of L-carnitine and under anaerobic conditions, CaiF positively regulates the expression of genes required for carnitine transport and catabolic process. Under this condition, CaiF is modified to CaiF-L-carnitine, binds its targets sites enabling the expression of its regulated genes.
Less detailed: In the presence of L-carnitine (under anaerobic conditions), CaiF positively regulates the expression of genes needed for carnitine transport and catabolic process

Physiology level
Detailed: L-carnitine cannot be utilized as carbon or nitrogen source, however under anaerobic conditions, the presence of this compound induces the expression of genes involved with L-carnitine catabolic process. Under this condition, genes the genes necessary for transport and conversion of L-carnitine to γ-butyrobetaine and its efflux, are expressed.
Less detailed: The presence of L-carnitine induces the expression of genes needful for the metabolism of carnitine to γ-butyrobetaine and its efflux.
Classification:
Groups: General function prediction only
Lipid transport and metabolism
Energy production and conversion
Cell wall/membrane/envelope biogenesis
Gene Ontology Terms (GO): biological_process GO:1902270 - (R)-carnitine transmembrane transport
GO:1900749 - (R)-carnitine transport
GO:1900751 - 4-(trimethylammonio)butanoate transport
GO:0042413 - carnitine catabolic process
GO:0009437 - carnitine metabolic process
GO:1902603 - carnitine transmembrane transport
Read more >
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
GO:0016021 - integral component of membrane
GO:0016020 - membrane
GO:0005886 - plasma membrane
molecular_function GO:0044667 - (R)-carnitine:4-(trimethylammonio)butanoate antiporter activity
GO:0051539 - 4 iron, 4 sulfur cluster binding
GO:0071949 - FAD binding
GO:0016878 - acid-thiol ligase activity
GO:0003995 - acyl-CoA dehydrogenase activity
GO:0015297 - antiporter activity
GO:0008735 - carnitine dehydratase activity
Read more >
Components:
  Function Name Type
  simple_molecule γ-butyrobetaine simple_molecule
  simple_molecule γ-butyrobetaine-CoA simple_molecule
  simple_molecule γ-butyrobetaine_Ext simple_molecule
  protein CaiA protein
  protein CaiB protein
  protein CaiC protein
  protein CaiD protein
  protein CaiE protein
  protein CaiF protein
  complex CaiF-vitamin Bt complex
  protein CaiT protein
  protein FixA protein
  protein FixB protein
  protein FixC protein
  protein FixX protein
  gene caiTABCDE gene
  RNA caiTABCDE_mRNA RNA
  simple_molecule carnityl-CoA simple_molecule
  simple_molecule coenzyme A simple_molecule
  simple_molecule crotonobetainyl-CoA simple_molecule
  simple_molecule diphosphate simple_molecule
  gene fixABCX gene
  RNA fixABCX_mRNA RNA
  simple_molecule oxidized ETF simple_molecule
  simple_molecule reduced ETF simple_molecule
  simple_molecule vitamin Bt simple_molecule
  simple_molecule vitamin Bt_Ext simple_molecule


Reactions       
Showing 18 reactions
vitamin Bt + CaiF CaiF-vitamin Bt
Name: vitamin Bt + CaiF -> CaiF-vitamin Bt
Description: Reaction transforming vitamin Bt, CaiF into CaiF-vitamin Bt
Type: state transition
Pathway Components: vitamin Bt + CaiF -> CaiF-vitamin Bt
Components:
Function Name Type
reactant CaiF protein
product CaiF-vitamin Bt complex
reactant vitamin Bt simple_molecule
CaiF-vitamin Bt caiTABCDE caiTABCDE_mRNA
Name: caiTABCDE -> caiTABCDE_mRNA
Description: Transcription of transcription unit caiTABCDE. Reaction activation by CaiF-vitamin Bt.
Type: transcription
Pathway Components: caiTABCDE - CaiF-vitamin Bt -> caiTABCDE_mRNA
Components:
Function Name Type
activator CaiF-vitamin Bt complex
reactant caiTABCDE gene
product caiTABCDE_mRNA RNA
CaiF-vitamin Bt fixABCX fixABCX_mRNA
Name: fixABCX -> fixABCX_mRNA
Description: Transcription of transcription unit fixABCX. Reaction activation by CaiF-vitamin Bt.
Type: transcription
Pathway Components: fixABCX - CaiF-vitamin Bt -> fixABCX_mRNA
Components:
Function Name Type
activator CaiF-vitamin Bt complex
reactant fixABCX gene
product fixABCX_mRNA RNA
caiTABCDE_mRNA CaiT
Name: caiTABCDE_mRNA -> CaiT
Description: Translation of CaiT
Type: translation
Pathway Components: caiTABCDE_mRNA -> CaiT
Components:
Function Name Type
product CaiT protein
reactant caiTABCDE_mRNA RNA
CaiT γ-butyrobetaine_Ext + vitamin Bt_Ext γ-butyrobetaine + vitamin Bt
Name: γ-butyrobetaine_Ext + vitamin Bt_Ext -> γ-butyrobetaine + vitamin Bt
Description: Transport of γ-butyrobetaine_Ext, vitamin Bt_Ext through a bacterial membrane, leading to the presence of γ-butyrobetaine, vitamin Bt inside the cell.
Type: transport
Pathway Components: γ-butyrobetaine_Ext + vitamin Bt_Ext - CaiT -> γ-butyrobetaine + vitamin Bt
Components:
Function Name Type
product γ-butyrobetaine simple_molecule
reactant γ-butyrobetaine_Ext simple_molecule
catalyzer CaiT protein
product vitamin Bt simple_molecule
reactant vitamin Bt_Ext simple_molecule
caiTABCDE_mRNA CaiA
Name: caiTABCDE_mRNA -> CaiA
Description: Translation of CaiA
Type: translation
Pathway Components: caiTABCDE_mRNA -> CaiA
Components:
Function Name Type
product CaiA protein
reactant caiTABCDE_mRNA RNA
γ-butyrobetaine CaiA crotonobetainyl-CoA + reduced ETF γ-butyrobetaine-CoA + oxidized ETF
Name: crotonobetainyl-CoA + reduced ETF -> γ-butyrobetaine-CoA + oxidized ETF
Description: Reaction transforming crotonobetainyl-CoA, reduced ETF into γ-butyrobetaine-CoA, oxidized ETF
Type: state transition
Pathway Components: crotonobetainyl-CoA + reduced ETF - CaiA - γ-butyrobetaine -> γ-butyrobetaine-CoA + oxidized ETF
Components:
Function Name Type
inhibitor γ-butyrobetaine simple_molecule
product γ-butyrobetaine-CoA simple_molecule
catalyzer CaiA protein
reactant crotonobetainyl-CoA simple_molecule
product oxidized ETF simple_molecule
reactant reduced ETF simple_molecule
caiTABCDE_mRNA CaiB
Name: caiTABCDE_mRNA -> CaiB
Description: Translation of CaiB
Type: translation
Pathway Components: caiTABCDE_mRNA -> CaiB
Components:
Function Name Type
product CaiB protein
reactant caiTABCDE_mRNA RNA
CaiB γ-butyrobetaine-CoA + vitamin Bt γ-butyrobetaine + carnityl-CoA
Name: γ-butyrobetaine-CoA + vitamin Bt -> γ-butyrobetaine + carnityl-CoA
Description: Reaction transforming γ-butyrobetaine-CoA, vitamin Bt into γ-butyrobetaine, carnityl-CoA
Type: state transition
Pathway Components: γ-butyrobetaine-CoA + vitamin Bt - CaiB -> γ-butyrobetaine + carnityl-CoA
Components:
Function Name Type
product γ-butyrobetaine simple_molecule
reactant γ-butyrobetaine-CoA simple_molecule
catalyzer CaiB protein
product carnityl-CoA simple_molecule
reactant vitamin Bt simple_molecule
caiTABCDE_mRNA CaiC
Name: caiTABCDE_mRNA -> CaiC
Description: Translation of CaiC
Type: translation
Pathway Components: caiTABCDE_mRNA -> CaiC
Components:
Function Name Type
product CaiC protein
reactant caiTABCDE_mRNA RNA
CaiC vitamin Bt + coenzyme A carnityl-CoA + diphosphate
Name: vitamin Bt + coenzyme A -> carnityl-CoA + diphosphate
Description: Reaction transforming vitamin Bt, coenzyme A into carnityl-CoA, diphosphate
Type: state transition
Pathway Components: vitamin Bt + coenzyme A - CaiC -> carnityl-CoA + diphosphate
Components:
Function Name Type
catalyzer CaiC protein
product carnityl-CoA simple_molecule
reactant coenzyme A simple_molecule
product diphosphate simple_molecule
reactant vitamin Bt simple_molecule
caiTABCDE_mRNA CaiD
Name: caiTABCDE_mRNA -> CaiD
Description: Translation of CaiD
Type: translation
Pathway Components: caiTABCDE_mRNA -> CaiD
Components:
Function Name Type
product CaiD protein
reactant caiTABCDE_mRNA RNA
CaiD carnityl-CoA crotonobetainyl-CoA
Name: carnityl-CoA -> crotonobetainyl-CoA
Description: Reaction transforming carnityl-CoA into crotonobetainyl-CoA
Type: state transition
Pathway Components: carnityl-CoA - CaiD -> crotonobetainyl-CoA
Components:
Function Name Type
catalyzer CaiD protein
reactant carnityl-CoA simple_molecule
product crotonobetainyl-CoA simple_molecule
caiTABCDE_mRNA CaiE
Name: caiTABCDE_mRNA -> CaiE
Description: Translation of CaiE
Type: translation
Pathway Components: caiTABCDE_mRNA -> CaiE
Components:
Function Name Type
product CaiE protein
reactant caiTABCDE_mRNA RNA
fixABCX_mRNA FixA
Name: fixABCX_mRNA -> FixA
Description: Translation of FixA
Type: translation
Pathway Components: fixABCX_mRNA -> FixA
Components:
Function Name Type
product FixA protein
reactant fixABCX_mRNA RNA
fixABCX_mRNA FixB
Name: fixABCX_mRNA -> FixB
Description: Translation of FixB
Type: translation
Pathway Components: fixABCX_mRNA -> FixB
Components:
Function Name Type
product FixB protein
reactant fixABCX_mRNA RNA
fixABCX_mRNA FixC
Name: fixABCX_mRNA -> FixC
Description: Translation of FixC
Type: translation
Pathway Components: fixABCX_mRNA -> FixC
Components:
Function Name Type
product FixC protein
reactant fixABCX_mRNA RNA
fixABCX_mRNA FixX
Name: fixABCX_mRNA -> FixX
Description: Translation of FixX
Type: translation
Pathway Components: fixABCX_mRNA -> FixX
Components:
Function Name Type
product FixX protein
reactant fixABCX_mRNA RNA



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