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


Gensor Unit Map          
1-deoxy-D-xylulose 1-deoxy-D-xylulose-5-P AraA AraB AraC AraD AraE AraF AraG AraH AraJ D-fucose D-xylose D-xylulose D-xylulose-5-P L-arabinose L-ribulose L-ribulose-5-phosphate XylA XylB L-arabinose L-arabinose_Ext araBAD araBAD_mRNA araC araC_mRNA araE araE_mRNA araFGH araFGH_mRNA araJ araJ_mRNA xylAB xylAB_mRNA AraC L-arabinose AraC D-fucose AraG AraH AraF AraC


Gensor Unit       
Name: AraC
Description: Molecular biology level
Detailed: In the presence of L-arabinose, AraC positively regulates the expression of genes required for transport of L-arabinose and negatively regulates the expression of genes required for catabolism of D-xylulose. Under these conditions, AraC is modified to AraC-L-arabinose binds its target sites where enables the expression of some of its regulated genes and prevents the expression of others of its regulated genes. AraC dually regulates the expression of genes involved in the degradation of L-arabinose in the absence of D-fucose and presence or absence of L-arabinose. Under these conditions, AraC binds its target sites, enables and prevents its own expression and the expression of its regulated genes.
Less detailed: In the presence of L-arabinose, AraC positively regulates the expression of genes needed for transport of L-arabinose and negatively regulates the expression of genes involved in catabolism of D-xylulose and also genes involved in the phosphorylation of 1-deoxy-D-xilulose-5-P. AraC dually regulates the expression of genes involved in the degradation of L-arabinose in the absence of D-fucose and presence or absence of L-arabinose.

Physiology level
Detailed: The presence of L-arabinose and the absence of D-fucose induce the expression of genes involved with L-arabinose entry into the cell and its assimilation and inhibit the expression of genes necessary for D-xylulose transformation. Under this condition, the genes necessary for transport and transformation of arabinose to D-xylulose-5-P, an intermediate of the pentose phosphate pathway, are expressed.
Less detailed: The presence of L-arabinose and the absence of D-fucose induce the expression of genes needful for L-arabinose entry into the cell and genes related to the transformation from D-xylose to D-xylulose-5-P and the phosphorylation of 1-deoxy-D-xylulose-5-P and inhibits the catabolism of D-xilulose. Read more >
Classification:
Groups: GUs related to carbon source utilization
Gene Ontology Terms (GO): biological_process GO:0042843 - D-xylose catabolic process
GO:0019572 - L-arabinose catabolic process
GO:0019569 - L-arabinose catabolic process to xylulose 5-phosphate
GO:0042882 - L-arabinose transmembrane transport
GO:0019324 - L-lyxose metabolic process
GO:0019568 - arabinose catabolic process
Read more >
cellular_component GO:0043190 - ATP-binding cassette (ABC) transporter complex
GO:0055052 - ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing
GO:0005737 - cytoplasm
GO:0005829 - cytosol
GO:0016021 - integral component of membrane
GO:0005887 - integral component of plasma membrane
GO:0016020 - membrane
Read more >
molecular_function GO:0016887 - ATPase activity
GO:0003700 - DNA binding transcription factor activity
GO:0008733 - L-arabinose isomerase activity
GO:0015147 - L-arabinose transmembrane transporter activity
GO:0008742 - L-ribulose-phosphate 4-epimerase activity
GO:0016832 - aldehyde-lyase activity
GO:0047661 - amino-acid racemase activity
Read more >
Components: Show/Hide Components Table (43 more...)
Function Name Type
simple_molecule 1-deoxy-xylulose simple_molecule
protein AraA protein
protein AraB protein
protein AraC protein
complex AraC-arabinose complex
complex AraC-fucose complex
protein AraD protein
protein AraE protein
protein AraF protein
protein AraG protein
complex AraG-AraH-AraF complex
protein AraH protein
protein AraJ protein
simple_molecule DOXP simple_molecule
protein XylA protein
protein XylB protein
protein YdeM protein
protein YdeN protein
protein YgeA protein
gene araBAD gene
RNA araBAD_mRNA RNA
gene araC gene
RNA araC_mRNA RNA
gene araE gene
gene araE-ygeA gene
RNA araE-ygeA_mRNA RNA
RNA araE_mRNA RNA
gene araFGH gene
RNA araFGH_mRNA RNA
gene araJ gene
RNA araJ_mRNA RNA
simple_molecule arabinose simple_molecule
simple_molecule arabinose_Ext simple_molecule
simple_molecule fucose simple_molecule
simple_molecule ribulose simple_molecule
simple_molecule ribulose-5-P simple_molecule
gene xylAB gene
RNA xylAB_mRNA RNA
simple_molecule xylopyranose simple_molecule
simple_molecule xylulose simple_molecule
simple_molecule xylulose-P simple_molecule
gene ydeNM gene
RNA ydeNM_mRNA RNA


Reactions       
Showing 33 reactions
AraC AraC-arabinose araE-ygeA araE-ygeA_mRNA
Name: araE-ygeA -> araE-ygeA_mRNA
Description: Transcription of transcription unit araE-ygeA. Reaction activation by AraC, and AraC-arabinose.
Type: transcription
Pathway Components: araE-ygeA - AraC - AraC-arabinose -> araE-ygeA_mRNA
Components:
Function Name Type Evidence Reference(s)
activator AraC protein nd nd
activator AraC-arabinose complex nd nd
reactant araE-ygeA gene nd nd
product araE-ygeA_mRNA RNA nd nd
AraC AraC-arabinose araFGH araFGH_mRNA
Name: araFGH -> araFGH_mRNA
Description: Transcription of transcription unit araFGH. Reaction activation by AraC, and AraC-arabinose.
Type: transcription
Pathway Components: araFGH - AraC - AraC-arabinose -> araFGH_mRNA
Components:
Function Name Type Evidence Reference(s)
activator AraC protein nd nd
activator AraC-arabinose complex nd nd
reactant araFGH gene nd nd
product araFGH_mRNA RNA nd nd
AraC AraC-arabinose araJ araJ_mRNA
Name: araJ -> araJ_mRNA
Description: Transcription of transcription unit araJ. Reaction activation by AraC, and AraC-arabinose.
Type: transcription
Pathway Components: araJ - AraC - AraC-arabinose -> araJ_mRNA
Components:
Function Name Type Evidence Reference(s)
activator AraC protein nd nd
activator AraC-arabinose complex nd nd
reactant araJ gene nd nd
product araJ_mRNA RNA nd nd
AraC AraC AraC-arabinose AraC-arabinose araBAD araBAD_mRNA
Name: araBAD -> araBAD_mRNA
Description: Transcription of transcription unit araBAD. Reaction activation by AraC, and AraC-arabinose. Reaction inhibition by AraC, and AraC-arabinose.
Type: transcription
Pathway Components: araBAD - AraC - AraC-arabinose - AraC - AraC-arabinose -> araBAD_mRNA
Components:
Function Name Type Evidence Reference(s)
activator AraC protein nd nd
inhibitor AraC protein nd nd
activator AraC-arabinose complex nd nd
inhibitor AraC-arabinose complex nd nd
reactant araBAD gene nd nd
product araBAD_mRNA RNA nd nd
AraC AraC AraC-arabinose AraC-arabinose araC araC_mRNA
Name: araC -> araC_mRNA
Description: Transcription of transcription unit araC. Reaction activation by AraC, and AraC-arabinose. Reaction inhibition by AraC, and AraC-arabinose.
Type: transcription
Pathway Components: araC - AraC - AraC-arabinose - AraC - AraC-arabinose -> araC_mRNA
Components:
Function Name Type Evidence Reference(s)
activator AraC protein nd nd
inhibitor AraC protein nd nd
activator AraC-arabinose complex nd nd
inhibitor AraC-arabinose complex nd nd
reactant araC gene nd nd
product araC_mRNA RNA nd nd
AraC AraC-arabinose xylAB xylAB_mRNA
Name: xylAB -> xylAB_mRNA
Description: Transcription of transcription unit xylAB. Reaction inhibition by AraC, and AraC-arabinose.
Type: transcription
Pathway Components: xylAB - AraC - AraC-arabinose -> xylAB_mRNA
Components:
Function Name Type Evidence Reference(s)
inhibitor AraC protein nd nd
inhibitor AraC-arabinose complex nd nd
reactant xylAB gene nd nd
product xylAB_mRNA RNA nd nd
AraC AraC-arabinose ydeNM ydeNM_mRNA
Name: ydeNM -> ydeNM_mRNA
Description: Transcription of transcription unit ydeNM. Reaction inhibition by AraC, and AraC-arabinose.
Type: transcription
Pathway Components: ydeNM - AraC - AraC-arabinose -> ydeNM_mRNA
Components:
Function Name Type Evidence Reference(s)
inhibitor AraC protein nd nd
inhibitor AraC-arabinose complex nd nd
reactant ydeNM gene nd nd
product ydeNM_mRNA RNA nd nd
arabinose + AraC AraC-arabinose
Name: arabinose + AraC -> AraC-arabinose
Description: Reaction transforming arabinose, AraC into AraC-arabinose
Type: state transition
Pathway Components: arabinose + AraC -> AraC-arabinose
Components:
Function Name Type Evidence Reference(s)
reactant AraC protein nd nd
product AraC-arabinose complex nd nd
reactant arabinose simple_molecule nd nd
fucose + AraC AraC-fucose
Name: fucose + AraC -> AraC-fucose
Description: Reaction transforming fucose, AraC into AraC-fucose
Type: state transition
Pathway Components: fucose + AraC -> AraC-fucose
Components:
Function Name Type Evidence Reference(s)
reactant AraC protein nd nd
product AraC-fucose complex nd nd
reactant fucose simple_molecule nd nd
AraC araE araE_mRNA
Name: araE -> araE_mRNA
Description: Transcription of transcription unit araE. Reaction activation by AraC.
Type: transcription
Pathway Components: araE - AraC -> araE_mRNA
Components:
Function Name Type Evidence Reference(s)
activator AraC protein nd nd
reactant araE gene nd nd
product araE_mRNA RNA nd nd
araBAD_mRNA AraB
Name: araBAD_mRNA -> AraB
Description: Translation of AraB
Type: translation
Pathway Components: araBAD_mRNA -> AraB
Components:
Function Name Type Evidence Reference(s)
product AraB protein nd nd
reactant araBAD_mRNA RNA nd nd
AraB ribulose ribulose-5-P
Name: ribulose -> ribulose-5-P
Description: Reaction transforming ribulose into ribulose-5-P
Type: state transition
Pathway Components: ribulose - AraB -> ribulose-5-P
Components:
Function Name Type Evidence Reference(s)
catalyzer AraB protein nd nd
reactant ribulose simple_molecule nd nd
product ribulose-5-P simple_molecule nd nd
araBAD_mRNA AraA
Name: araBAD_mRNA -> AraA
Description: Translation of AraA
Type: translation
Pathway Components: araBAD_mRNA -> AraA
Components:
Function Name Type Evidence Reference(s)
product AraA protein nd nd
reactant araBAD_mRNA RNA nd nd
AraA arabinose ribulose
Name: arabinose -> ribulose
Description: Reaction transforming arabinose into ribulose
Type: state transition
Pathway Components: arabinose - AraA -> ribulose
Components:
Function Name Type Evidence Reference(s)
catalyzer AraA protein nd nd
reactant arabinose simple_molecule nd nd
product ribulose simple_molecule nd nd
araBAD_mRNA AraD
Name: araBAD_mRNA -> AraD
Description: Translation of AraD
Type: translation
Pathway Components: araBAD_mRNA -> AraD
Components:
Function Name Type Evidence Reference(s)
product AraD protein nd nd
reactant araBAD_mRNA RNA nd nd
AraD ribulose-5-P xylulose-P
Name: ribulose-5-P -> xylulose-P
Description: Reaction transforming ribulose-5-P into xylulose-P
Type: state transition
Pathway Components: ribulose-5-P - AraD -> xylulose-P
Components:
Function Name Type Evidence Reference(s)
catalyzer AraD protein nd nd
reactant ribulose-5-P simple_molecule nd nd
product xylulose-P simple_molecule nd nd
araE_mRNA AraE
Name: araE_mRNA -> AraE
Description: Translation of AraE
Type: translation
Pathway Components: araE_mRNA -> AraE
Components:
Function Name Type Evidence Reference(s)
product AraE protein nd nd
reactant araE_mRNA RNA nd nd
AraE AraG-AraH-AraF arabinose_Ext arabinose
Name: arabinose_Ext -> arabinose
Description: Transport of arabinose_Ext through a bacterial membrane, leading to the presence of arabinose inside the cell.
Type: transport
Pathway Components: arabinose_Ext - AraE - AraG-AraH-AraF -> arabinose
Components:
Function Name Type Evidence Reference(s)
catalyzer AraE protein nd nd
catalyzer AraG-AraH-AraF complex nd nd
product arabinose simple_molecule nd nd
reactant arabinose_Ext simple_molecule nd nd
araE-ygeA_mRNA AraE
Name: araE-ygeA_mRNA -> AraE
Description: Translation of AraE
Type: translation
Pathway Components: araE-ygeA_mRNA -> AraE
Components:
Function Name Type Evidence Reference(s)
product AraE protein nd nd
reactant araE-ygeA_mRNA RNA nd nd
araE-ygeA_mRNA YgeA
Name: araE-ygeA_mRNA -> YgeA
Description: Translation of YgeA
Type: translation
Pathway Components: araE-ygeA_mRNA -> YgeA
Components:
Function Name Type Evidence Reference(s)
product YgeA protein nd nd
reactant araE-ygeA_mRNA RNA nd nd
araJ_mRNA AraJ
Name: araJ_mRNA -> AraJ
Description: Translation of AraJ
Type: translation
Pathway Components: araJ_mRNA -> AraJ
Components:
Function Name Type Evidence Reference(s)
product AraJ protein nd nd
reactant araJ_mRNA RNA nd nd
araC_mRNA AraC
Name: araC_mRNA -> AraC
Description: Translation of AraC
Type: translation
Pathway Components: araC_mRNA -> AraC
Components:
Function Name Type Evidence Reference(s)
product AraC protein nd nd
reactant araC_mRNA RNA nd nd
xylAB_mRNA XylA
Name: xylAB_mRNA -> XylA
Description: Translation of XylA
Type: translation
Pathway Components: xylAB_mRNA -> XylA
Components:
Function Name Type Evidence Reference(s)
product XylA protein nd nd
reactant xylAB_mRNA RNA nd nd
XylA xylopyranose xylulose
Name: xylopyranose -> xylulose
Description: Reaction transforming xylopyranose into xylulose
Type: state transition
Pathway Components: xylopyranose - XylA -> xylulose
Components:
Function Name Type Evidence Reference(s)
catalyzer XylA protein nd nd
reactant xylopyranose simple_molecule nd nd
product xylulose simple_molecule nd nd
xylAB_mRNA XylB
Name: xylAB_mRNA -> XylB
Description: Translation of XylB
Type: translation
Pathway Components: xylAB_mRNA -> XylB
Components:
Function Name Type Evidence Reference(s)
product XylB protein nd nd
reactant xylAB_mRNA RNA nd nd
XylB xylulose xylulose-P
Name: xylulose -> xylulose-P
Description: Reaction transforming xylulose into xylulose-P
Type: state transition
Pathway Components: xylulose - XylB -> xylulose-P
Components:
Function Name Type Evidence Reference(s)
catalyzer XylB protein nd nd
reactant xylulose simple_molecule nd nd
product xylulose-P simple_molecule nd nd
XylB 1-deoxy-xylulose DOXP
Name: 1-deoxy-xylulose -> DOXP
Description: Reaction transforming 1-deoxy-xylulose into DOXP
Type: state transition
Pathway Components: 1-deoxy-xylulose - XylB -> DOXP
Components:
Function Name Type Evidence Reference(s)
reactant 1-deoxy-xylulose simple_molecule nd nd
product DOXP simple_molecule nd nd
catalyzer XylB protein nd nd
araFGH_mRNA AraF
Name: araFGH_mRNA -> AraF
Description: Translation of AraF
Type: translation
Pathway Components: araFGH_mRNA -> AraF
Components:
Function Name Type Evidence Reference(s)
product AraF protein nd nd
reactant araFGH_mRNA RNA nd nd
AraH + AraG + AraF AraG-AraH-AraF
Name: AraH + AraG + AraF -> AraG-AraH-AraF
Description: Reaction transforming AraH, AraG, AraF into AraG-AraH-AraF
Type: state transition
Pathway Components: AraH + AraG + AraF -> AraG-AraH-AraF
Components:
Function Name Type Evidence Reference(s)
reactant AraF protein nd nd
reactant AraG protein nd nd
product AraG-AraH-AraF complex nd nd
reactant AraH protein nd nd
araFGH_mRNA AraG
Name: araFGH_mRNA -> AraG
Description: Translation of AraG
Type: translation
Pathway Components: araFGH_mRNA -> AraG
Components:
Function Name Type Evidence Reference(s)
product AraG protein nd nd
reactant araFGH_mRNA RNA nd nd
araFGH_mRNA AraH
Name: araFGH_mRNA -> AraH
Description: Translation of AraH
Type: translation
Pathway Components: araFGH_mRNA -> AraH
Components:
Function Name Type Evidence Reference(s)
product AraH protein nd nd
reactant araFGH_mRNA RNA nd nd
ydeNM_mRNA YdeN
Name: ydeNM_mRNA -> YdeN
Description: Translation of YdeN
Type: translation
Pathway Components: ydeNM_mRNA -> YdeN
Components:
Function Name Type Evidence Reference(s)
product YdeN protein nd nd
reactant ydeNM_mRNA RNA nd nd
ydeNM_mRNA YdeM
Name: ydeNM_mRNA -> YdeM
Description: Translation of YdeM
Type: translation
Pathway Components: ydeNM_mRNA -> YdeM
Components:
Function Name Type Evidence Reference(s)
product YdeM protein nd nd
reactant ydeNM_mRNA RNA nd nd



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