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


Gensor Unit Map          
XylG xylulose-P araC_mRNA XylH xylAB XylR 1-deoxy-xylulose xylFGHR xylose XylB xylopyranose XylH xylose_Ext xylose DOXP araC AraC XylF XylF xylulose XylA xylAB_mRNA xylFGHR_mRNA XylG XylR


Gensor Unit       
Name: XylR
Description: Molecular biology level
Detailed: In the presence of xylose, XylR positively regulates its own expression and the expression of genes required for Xylose transport and catabolism. Under these conditions, XylR is modified to XylR-xylose, binds its target sites enabling the expression of its regulated genes.
Less detailed: In the presence of xylose, XylR positively regulates the expression of genes needed for xylose transport and catabolic process.

Physiology level
Detailed: The presence of xylose induces the expression of genes involved with xylose transport and catabolic process. Under these conditions the genes necessary for transport of xylose and its conversion to xylulose-5-phosphate, an intermediate of the pentose phosphate pathway; are expressed.
Less detailed: The presence of xylose induces the expression of genes needful for xylose transport and its conversion to xylulose-5-phosphate, an intermediate of the pentose phosphate pathway.
Classification:
Groups: Transcription
Carbohydrate transport and metabolism
Gene Ontology Terms (GO): biological_process GO:0015752 - D-ribose transmembrane transport
GO:0042843 - D-xylose catabolic process
GO:0042732 - D-xylose metabolic process
GO:0015753 - D-xylose transmembrane transport
GO:0019568 - arabinose catabolic process
GO:0005975 - carbohydrate metabolic process
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cellular_component GO:0043190 - ATP-binding cassette (ABC) transporter complex
GO:0005737 - cytoplasm
GO:0005829 - cytosol
GO:0016021 - integral component of membrane
GO:0005887 - integral component of plasma membrane
GO:0016020 - membrane
GO:0030288 - outer membrane-bounded periplasmic space
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molecular_function GO:0005524 - ATP binding
GO:0016887 - ATPase activity
GO:0015148 - D-xylose transmembrane transporter activity
GO:0015614 - D-xylose-importing ATPase activity
GO:0003677 - DNA binding
GO:0001216 - DNA-binding transcription activator activity
GO:0003700 - DNA-binding transcription factor activity
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Components:
  Function Name Type
  simple_molecule 1-deoxy-xylulose simple_molecule
  protein AraC protein
  simple_molecule DOXP simple_molecule
  protein XylA protein
  protein XylB protein
  protein XylF protein
  protein XylG protein
  complex XylG-XylH-XylF complex
  protein XylH protein
  protein XylR protein
  complex XylR-xylose complex
  gene araC gene
  RNA araC_mRNA RNA
  gene xylAB gene
  RNA xylAB_mRNA RNA
  gene xylFGHR gene
  RNA xylFGHR_mRNA RNA
  simple_molecule xylopyranose simple_molecule
  simple_molecule xylose simple_molecule
  simple_molecule xylose_Ext simple_molecule
  simple_molecule xylulose simple_molecule
  simple_molecule xylulose-P simple_molecule


Reactions       
Showing 16 reactions
xylose + XylR XylR-xylose
Name: xylose + XylR -> XylR-xylose
Description: Reaction transforming xylose, XylR into XylR-xylose
Type: state transition
Pathway Components: xylose + XylR -> XylR-xylose
Components:
Function Name Type
reactant XylR protein
product XylR-xylose complex
reactant xylose simple_molecule
XylR-xylose xylAB xylAB_mRNA
Name: xylAB -> xylAB_mRNA
Description: Transcription of transcription unit xylAB. Reaction activation by XylR-xylose.
Type: transcription
Pathway Components: xylAB - XylR-xylose -> xylAB_mRNA
Components:
Function Name Type
activator XylR-xylose complex
reactant xylAB gene
product xylAB_mRNA RNA
XylR-xylose xylFGHR xylFGHR_mRNA
Name: xylFGHR -> xylFGHR_mRNA
Description: Transcription of transcription unit xylFGHR. Reaction activation by XylR-xylose.
Type: transcription
Pathway Components: xylFGHR - XylR-xylose -> xylFGHR_mRNA
Components:
Function Name Type
activator XylR-xylose complex
reactant xylFGHR gene
product xylFGHR_mRNA RNA
XylR-xylose araC araC_mRNA
Name: araC -> araC_mRNA
Description: Transcription of transcription unit araC. Reaction inhibition by XylR-xylose.
Type: transcription
Pathway Components: araC - XylR-xylose -> araC_mRNA
Components:
Function Name Type
inhibitor XylR-xylose complex
reactant araC gene
product araC_mRNA RNA
xylFGHR_mRNA XylF
Name: xylFGHR_mRNA -> XylF
Description: Translation of XylF
Type: translation
Pathway Components: xylFGHR_mRNA -> XylF
Components:
Function Name Type
product XylF protein
reactant xylFGHR_mRNA RNA
XylH + XylG + XylF XylG-XylH-XylF
Name: XylH + XylG + XylF -> XylG-XylH-XylF
Description: Reaction transforming XylH, XylG, XylF into XylG-XylH-XylF
Type: state transition
Pathway Components: XylH + XylG + XylF -> XylG-XylH-XylF
Components:
Function Name Type
reactant XylF protein
reactant XylG protein
product XylG-XylH-XylF complex
reactant XylH protein
XylG-XylH-XylF xylose_Ext xylose
Name: xylose_Ext -> xylose
Description: Transport of xylose_Ext through a bacterial membrane, leading to the presence of xylose inside the cell.
Type: transport
Pathway Components: xylose_Ext - XylG-XylH-XylF -> xylose
Components:
Function Name Type
catalyzer XylG-XylH-XylF complex
product xylose simple_molecule
reactant xylose_Ext simple_molecule
xylFGHR_mRNA XylG
Name: xylFGHR_mRNA -> XylG
Description: Translation of XylG
Type: translation
Pathway Components: xylFGHR_mRNA -> XylG
Components:
Function Name Type
product XylG protein
reactant xylFGHR_mRNA RNA
xylFGHR_mRNA XylH
Name: xylFGHR_mRNA -> XylH
Description: Translation of XylH
Type: translation
Pathway Components: xylFGHR_mRNA -> XylH
Components:
Function Name Type
product XylH protein
reactant xylFGHR_mRNA RNA
xylFGHR_mRNA XylR
Name: xylFGHR_mRNA -> XylR
Description: Translation of XylR
Type: translation
Pathway Components: xylFGHR_mRNA -> XylR
Components:
Function Name Type
product XylR protein
reactant xylFGHR_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
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



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