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


Gensor Unit Map          
xylAB_mRNA XylB xylulose AraE XylA AraC arabinose ribulose-5-P AraD AraF xylopyranose AraH araBAD_mRNA arabinose araE_mRNA homoserine ydeNM_mRNA araJ_mRNA araE araE-ygeA AraJ araJ 1-deoxy-xylulose YdeM ribulose AraH homo-ser arabinose_Ext araFGH_mRNA YgeA ydeNM AraG fucose xylulose-P YdeN fucose AraG araC AraC xylAB DOXP AraF araE-ygeA_mRNA araBAD araFGH araC_mRNA AraB AraA 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.
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Classification:
Groups: General function prediction only
Inorganic ion transport and metabolism
Posttranslational modification, protein turnover, chaperones
Carbohydrate transport and metabolism
Cell wall/membrane/envelope biogenesis
Gene Ontology Terms (GO): biological_process GO:0042843 - D-xylose catabolic process
GO:0042732 - D-xylose metabolic 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
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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
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molecular_function GO:0051539 - 4 iron, 4 sulfur cluster binding
GO:0015612 - ABC-type L-arabinose transporter activity
GO:0015407 - ABC-type monosaccharide transporter activity
GO:0005524 - ATP binding
GO:0016887 - ATP hydrolysis activity
GO:0003677 - DNA binding
GO:0001216 - DNA-binding transcription activator activity
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Components:
  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 homo-ser simple_molecule
  simple_molecule homoserine 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 34 reactions
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
activator AraC protein
inhibitor AraC protein
activator AraC-arabinose complex
inhibitor AraC-arabinose complex
reactant araBAD gene
product araBAD_mRNA RNA
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
activator AraC protein
inhibitor AraC protein
activator AraC-arabinose complex
inhibitor AraC-arabinose complex
reactant araC gene
product araC_mRNA RNA
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
reactant AraC protein
product AraC-arabinose complex
reactant arabinose simple_molecule
AraC-arabinose araE araE_mRNA
Name: araE -> araE_mRNA
Description: Transcription of transcription unit araE. Reaction activation by AraC-arabinose.
Type: transcription
Pathway Components: araE - AraC-arabinose -> araE_mRNA
Components:
Function Name Type
activator AraC-arabinose complex
reactant araE gene
product araE_mRNA RNA
AraC-arabinose araE-ygeA araE-ygeA_mRNA
Name: araE-ygeA -> araE-ygeA_mRNA
Description: Transcription of transcription unit araE-ygeA. Reaction activation by AraC-arabinose.
Type: transcription
Pathway Components: araE-ygeA - AraC-arabinose -> araE-ygeA_mRNA
Components:
Function Name Type
activator AraC-arabinose complex
reactant araE-ygeA gene
product araE-ygeA_mRNA RNA
AraC-arabinose araFGH araFGH_mRNA
Name: araFGH -> araFGH_mRNA
Description: Transcription of transcription unit araFGH. Reaction activation by AraC-arabinose.
Type: transcription
Pathway Components: araFGH - AraC-arabinose -> araFGH_mRNA
Components:
Function Name Type
activator AraC-arabinose complex
reactant araFGH gene
product araFGH_mRNA RNA
AraC-arabinose araJ araJ_mRNA
Name: araJ -> araJ_mRNA
Description: Transcription of transcription unit araJ. Reaction activation by AraC-arabinose.
Type: transcription
Pathway Components: araJ - AraC-arabinose -> araJ_mRNA
Components:
Function Name Type
activator AraC-arabinose complex
reactant araJ gene
product araJ_mRNA RNA
AraC-arabinose xylAB xylAB_mRNA
Name: xylAB -> xylAB_mRNA
Description: Transcription of transcription unit xylAB. Reaction inhibition by AraC-arabinose.
Type: transcription
Pathway Components: xylAB - AraC-arabinose -> xylAB_mRNA
Components:
Function Name Type
inhibitor AraC-arabinose complex
reactant xylAB gene
product xylAB_mRNA RNA
AraC-arabinose ydeNM ydeNM_mRNA
Name: ydeNM -> ydeNM_mRNA
Description: Transcription of transcription unit ydeNM. Reaction inhibition by AraC-arabinose.
Type: transcription
Pathway Components: ydeNM - AraC-arabinose -> ydeNM_mRNA
Components:
Function Name Type
inhibitor AraC-arabinose complex
reactant ydeNM gene
product ydeNM_mRNA RNA
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
reactant AraC protein
product AraC-fucose complex
reactant fucose simple_molecule
ydeNM_mRNA YdeN
Name: ydeNM_mRNA -> YdeN
Description: Translation of YdeN
Type: translation
Pathway Components: ydeNM_mRNA -> YdeN
Components:
Function Name Type
product YdeN protein
reactant ydeNM_mRNA RNA
ydeNM_mRNA YdeM
Name: ydeNM_mRNA -> YdeM
Description: Translation of YdeM
Type: translation
Pathway Components: ydeNM_mRNA -> YdeM
Components:
Function Name Type
product YdeM protein
reactant ydeNM_mRNA RNA
araFGH_mRNA AraF
Name: araFGH_mRNA -> AraF
Description: Translation of AraF
Type: translation
Pathway Components: araFGH_mRNA -> AraF
Components:
Function Name Type
product AraF protein
reactant araFGH_mRNA RNA
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
reactant AraF protein
reactant AraG protein
product AraG-AraH-AraF complex
reactant AraH protein
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
catalyzer AraE protein
catalyzer AraG-AraH-AraF complex
product arabinose simple_molecule
reactant arabinose_Ext simple_molecule
araFGH_mRNA AraG
Name: araFGH_mRNA -> AraG
Description: Translation of AraG
Type: translation
Pathway Components: araFGH_mRNA -> AraG
Components:
Function Name Type
product AraG protein
reactant araFGH_mRNA RNA
araFGH_mRNA AraH
Name: araFGH_mRNA -> AraH
Description: Translation of AraH
Type: translation
Pathway Components: araFGH_mRNA -> AraH
Components:
Function Name Type
product AraH protein
reactant araFGH_mRNA RNA
xylAB_mRNA XylA
Name: xylAB_mRNA -> XylA
Description: Translation of XylA
Type: translation
Pathway Components: xylAB_mRNA -> XylA
Components:
Function Name Type
product XylA protein
reactant xylAB_mRNA RNA
XylA xylopyranose xylulose
Name: xylopyranose -> xylulose
Description: Reaction transforming xylopyranose into xylulose
Type: state transition
Pathway Components: xylopyranose - XylA -> xylulose
Components:
Function Name Type
catalyzer XylA protein
reactant xylopyranose simple_molecule
product xylulose simple_molecule
xylAB_mRNA XylB
Name: xylAB_mRNA -> XylB
Description: Translation of XylB
Type: translation
Pathway Components: xylAB_mRNA -> XylB
Components:
Function Name Type
product XylB protein
reactant xylAB_mRNA RNA
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
catalyzer XylB protein
reactant xylulose simple_molecule
product xylulose-P simple_molecule
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
reactant 1-deoxy-xylulose simple_molecule
product DOXP simple_molecule
catalyzer XylB protein
araJ_mRNA AraJ
Name: araJ_mRNA -> AraJ
Description: Translation of AraJ
Type: translation
Pathway Components: araJ_mRNA -> AraJ
Components:
Function Name Type
product AraJ protein
reactant araJ_mRNA RNA
araBAD_mRNA AraB
Name: araBAD_mRNA -> AraB
Description: Translation of AraB
Type: translation
Pathway Components: araBAD_mRNA -> AraB
Components:
Function Name Type
product AraB protein
reactant araBAD_mRNA RNA
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
catalyzer AraB protein
reactant ribulose simple_molecule
product ribulose-5-P simple_molecule
araBAD_mRNA AraA
Name: araBAD_mRNA -> AraA
Description: Translation of AraA
Type: translation
Pathway Components: araBAD_mRNA -> AraA
Components:
Function Name Type
product AraA protein
reactant araBAD_mRNA RNA
AraA arabinose ribulose
Name: arabinose -> ribulose
Description: Reaction transforming arabinose into ribulose
Type: state transition
Pathway Components: arabinose - AraA -> ribulose
Components:
Function Name Type
catalyzer AraA protein
reactant arabinose simple_molecule
product ribulose simple_molecule
araBAD_mRNA AraD
Name: araBAD_mRNA -> AraD
Description: Translation of AraD
Type: translation
Pathway Components: araBAD_mRNA -> AraD
Components:
Function Name Type
product AraD protein
reactant araBAD_mRNA RNA
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
catalyzer AraD protein
reactant ribulose-5-P simple_molecule
product xylulose-P simple_molecule
araC_mRNA AraC
Name: araC_mRNA -> AraC
Description: Translation of AraC
Type: translation
Pathway Components: araC_mRNA -> AraC
Components:
Function Name Type
product AraC protein
reactant araC_mRNA RNA
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
product AraE protein
reactant araE-ygeA_mRNA RNA
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
product YgeA protein
reactant araE-ygeA_mRNA RNA
YgeA homo-ser homoserine
Name: homo-ser -> homoserine
Description: Reaction transforming homo-ser into homoserine
Type: state transition
Pathway Components: homo-ser - YgeA -> homoserine
Components:
Function Name Type
catalyzer YgeA protein
reactant homo-ser simple_molecule
product homoserine simple_molecule
araE_mRNA AraE
Name: araE_mRNA -> AraE
Description: Translation of AraE
Type: translation
Pathway Components: araE_mRNA -> AraE
Components:
Function Name Type
product AraE protein
reactant araE_mRNA RNA
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