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


Gensor Unit Map          
SoxR soxS_mRNA yjcB_mRNA soxR_mRNA sodA [2Fe-2S]3+ oxidized AroF mgtLA_mRNA magnesium YrbL YjcB chorismate yrbL lpxC_mRNA UDP-3-O-(3-hydroxymyristoyl)-N-acetylglucosamine aroF-tyrA [2Fe-2S]2+ reduced yjcB erythrose-4P soxS This Gensor Unit is not yet available P-enol-pyruvate SodA CO2 DAHP SoxR yrbL_mRNA hydroxyphenylpyruvate aroF-tyrA_mRNA MgtA superoxide magnesium_Ext mgtLA phosphate oxygen [2Fe-2S]2+ reduced soxR TyrA fumarate FumC MgtL SoxR [2Fe-2S]3+ oxidized sodA_mRNA malate This Gensor Unit is not yet available perhydrol acetate prephenate UDP-3-O-(3-hydroxytetradecanoyl)glucosamine LpxC lpxC SoxS


Gensor Unit       
Name: SoxR
Classification:
Groups: Transcription
Energy production and conversion
Gene Ontology Terms (GO): biological_process GO:0006106 - fumarate metabolic process
GO:0019249 - lactate biosynthetic process
GO:0006108 - malate metabolic process
GO:0008152 - metabolic process
GO:0019243 - methylglyoxal catabolic process to D-lactate via S-lactoyl-glutathione
GO:0006355 - regulation of transcription, DNA-templated
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cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
GO:0045239 - tricarboxylic acid cycle enzyme complex
molecular_function GO:0051537 - 2 iron, 2 sulfur cluster binding
GO:0003677 - DNA binding
GO:0003700 - DNA-binding transcription factor activity
GO:0001108 - bacterial-type RNA polymerase holo enzyme binding
GO:0003824 - catalytic activity
GO:0004333 - fumarate hydratase activity
GO:0019172 - glyoxalase III activity
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Components:
  Function Name Type
  protein AroF protein
  simple_molecule CO2 simple_molecule
  simple_molecule DAHP simple_molecule
  protein FumC protein
  protein LpxC protein
  protein MgtA protein
  protein MgtL protein
  simple_molecule P-enol-pyruvate simple_molecule
  protein SodA protein
  protein SoxR protein
  complex SoxR-[2Fe-2S]2+ reduced complex
  complex SoxR-[2Fe-2S]3+ oxidized complex
  protein SoxS protein
  protein TyrA protein
  simple_molecule UDP-3-O-(3-hydroxymyristoyl)-N-acetylglucosamine simple_molecule
  simple_molecule UDP-3-O-(3-hydroxytetradecanoyl)glucosamine simple_molecule
  protein YjcB protein
  protein YrbL protein
  simple_molecule [2Fe-2S]2+ reduced simple_molecule
  simple_molecule [2Fe-2S]3+ oxidized simple_molecule
  simple_molecule acetate simple_molecule
  gene aroF-tyrA gene
  RNA aroF-tyrA_mRNA RNA
  simple_molecule chorismate simple_molecule
  simple_molecule erythrose-4P simple_molecule
  gene fumC gene
  RNA fumC_mRNA RNA
  simple_molecule fumarate simple_molecule
  simple_molecule hydroxyphenylpyruvate simple_molecule
  gene lpxC gene
  RNA lpxC_mRNA RNA
  simple_molecule magnesium simple_molecule
  simple_molecule magnesium_Ext simple_molecule
  simple_molecule malate simple_molecule
  gene mgtLA gene
  RNA mgtLA_mRNA RNA
  simple_molecule oxygen simple_molecule
  simple_molecule perhydrol simple_molecule
  simple_molecule phosphate simple_molecule
  simple_molecule prephenate simple_molecule
  gene sodA gene
  RNA sodA_mRNA RNA
  gene soxR gene
  RNA soxR_mRNA RNA
  gene soxS gene
  RNA soxS_mRNA RNA
  simple_molecule superoxide simple_molecule
  gene yjcB gene
  RNA yjcB_mRNA RNA
  gene yrbL gene
  RNA yrbL_mRNA RNA


Reactions       
Showing 30 reactions
SoxR aroF-tyrA aroF-tyrA_mRNA
Name: aroF-tyrA -> aroF-tyrA_mRNA
Description: Transcription of transcription unit aroF-tyrA. Reaction activation by SoxR.
Type: transcription
Pathway Components: aroF-tyrA - SoxR -> aroF-tyrA_mRNA
Components:
Function Name Type
activator SoxR protein
reactant aroF-tyrA gene
product aroF-tyrA_mRNA RNA
SoxR fumC fumC_mRNA
Name: fumC -> fumC_mRNA
Description: Transcription of transcription unit fumC. Reaction activation by SoxR.
Type: transcription
Pathway Components: fumC - SoxR -> fumC_mRNA
Components:
Function Name Type
activator SoxR protein
reactant fumC gene
product fumC_mRNA RNA
SoxR lpxC lpxC_mRNA
Name: lpxC -> lpxC_mRNA
Description: Transcription of transcription unit lpxC. Reaction activation by SoxR.
Type: transcription
Pathway Components: lpxC - SoxR -> lpxC_mRNA
Components:
Function Name Type
activator SoxR protein
reactant lpxC gene
product lpxC_mRNA RNA
SoxR mgtLA mgtLA_mRNA
Name: mgtLA -> mgtLA_mRNA
Description: Transcription of transcription unit mgtLA. Reaction activation by SoxR.
Type: transcription
Pathway Components: mgtLA - SoxR -> mgtLA_mRNA
Components:
Function Name Type
activator SoxR protein
reactant mgtLA gene
product mgtLA_mRNA RNA
SoxR sodA sodA_mRNA
Name: sodA -> sodA_mRNA
Description: Transcription of transcription unit sodA. Reaction activation by SoxR.
Type: transcription
Pathway Components: sodA - SoxR -> sodA_mRNA
Components:
Function Name Type
activator SoxR protein
reactant sodA gene
product sodA_mRNA RNA
SoxR soxS soxS_mRNA
Name: soxS -> soxS_mRNA
Description: Transcription of transcription unit soxS. Reaction activation by SoxR.
Type: transcription
Pathway Components: soxS - SoxR -> soxS_mRNA
Components:
Function Name Type
activator SoxR protein
reactant soxS gene
product soxS_mRNA RNA
SoxR yjcB yjcB_mRNA
Name: yjcB -> yjcB_mRNA
Description: Transcription of transcription unit yjcB. Reaction activation by SoxR.
Type: transcription
Pathway Components: yjcB - SoxR -> yjcB_mRNA
Components:
Function Name Type
activator SoxR protein
reactant yjcB gene
product yjcB_mRNA RNA
SoxR yrbL yrbL_mRNA
Name: yrbL -> yrbL_mRNA
Description: Transcription of transcription unit yrbL. Reaction activation by SoxR.
Type: transcription
Pathway Components: yrbL - SoxR -> yrbL_mRNA
Components:
Function Name Type
activator SoxR protein
reactant yrbL gene
product yrbL_mRNA RNA
SoxR soxR soxR_mRNA
Name: soxR -> soxR_mRNA
Description: Transcription of transcription unit soxR. Reaction inhibition by SoxR.
Type: transcription
Pathway Components: soxR - SoxR -> soxR_mRNA
Components:
Function Name Type
inhibitor SoxR protein
reactant soxR gene
product soxR_mRNA RNA
[2Fe-2S]2+ reduced + SoxR SoxR-[2Fe-2S]2+ reduced
Name: [2Fe-2S]2+ reduced + SoxR -> SoxR-[2Fe-2S]2+ reduced
Description: Reaction transforming [2Fe-2S]2+ reduced, SoxR into SoxR-[2Fe-2S]2+ reduced
Type: state transition
Pathway Components: [2Fe-2S]2+ reduced + SoxR -> SoxR-[2Fe-2S]2+ reduced
Components:
Function Name Type
reactant SoxR protein
product SoxR-[2Fe-2S]2+ reduced complex
reactant [2Fe-2S]2+ reduced simple_molecule
[2Fe-2S]3+ oxidized + SoxR SoxR-[2Fe-2S]3+ oxidized
Name: [2Fe-2S]3+ oxidized + SoxR -> SoxR-[2Fe-2S]3+ oxidized
Description: Reaction transforming [2Fe-2S]3+ oxidized, SoxR into SoxR-[2Fe-2S]3+ oxidized
Type: state transition
Pathway Components: [2Fe-2S]3+ oxidized + SoxR -> SoxR-[2Fe-2S]3+ oxidized
Components:
Function Name Type
reactant SoxR protein
product SoxR-[2Fe-2S]3+ oxidized complex
reactant [2Fe-2S]3+ oxidized simple_molecule
soxR_mRNA SoxR
Name: soxR_mRNA -> SoxR
Description: Translation of SoxR
Type: translation
Pathway Components: soxR_mRNA -> SoxR
Components:
Function Name Type
product SoxR protein
reactant soxR_mRNA RNA
lpxC_mRNA LpxC
Name: lpxC_mRNA -> LpxC
Description: Translation of LpxC
Type: translation
Pathway Components: lpxC_mRNA -> LpxC
Components:
Function Name Type
product LpxC protein
reactant lpxC_mRNA RNA
LpxC UDP-3-O-(3-hydroxymyristoyl)-N-acetylglucosamine Products
Name: UDP-3-O-(3-hydroxymyristoyl)-N-acetylglucosamine -> UDP-3-O-(3-hydroxytetradecanoyl)glucosamine + acetate
Description: Reaction transforming UDP-3-O-(3-hydroxymyristoyl)-N-acetylglucosamine into UDP-3-O-(3-hydroxytetradecanoyl)glucosamine, acetate
Type: state transition
Pathway Components: UDP-3-O-(3-hydroxymyristoyl)-N-acetylglucosamine - LpxC -> UDP-3-O-(3-hydroxytetradecanoyl)glucosamine + acetate
Components:
Function Name Type
catalyzer LpxC protein
reactant UDP-3-O-(3-hydroxymyristoyl)-N-acetylglucosamine simple_molecule
product UDP-3-O-(3-hydroxytetradecanoyl)glucosamine simple_molecule
product acetate simple_molecule
aroF-tyrA_mRNA AroF
Name: aroF-tyrA_mRNA -> AroF
Description: Translation of AroF
Type: translation
Pathway Components: aroF-tyrA_mRNA -> AroF
Components:
Function Name Type
product AroF protein
reactant aroF-tyrA_mRNA RNA
AroF DAHP P-enol-pyruvate + erythrose-4P phosphate + DAHP
Name: P-enol-pyruvate + erythrose-4P -> phosphate + DAHP
Description: Reaction transforming P-enol-pyruvate, erythrose-4P into phosphate, DAHP
Type: state transition
Pathway Components: P-enol-pyruvate + erythrose-4P - AroF - DAHP -> phosphate + DAHP
Components:
Function Name Type
catalyzer AroF protein
inhibitor DAHP simple_molecule
product DAHP simple_molecule
reactant P-enol-pyruvate simple_molecule
reactant erythrose-4P simple_molecule
product phosphate simple_molecule
aroF-tyrA_mRNA TyrA
Name: aroF-tyrA_mRNA -> TyrA
Description: Translation of TyrA
Type: translation
Pathway Components: aroF-tyrA_mRNA -> TyrA
Components:
Function Name Type
product TyrA protein
reactant aroF-tyrA_mRNA RNA
TyrA prephenate chorismate prephenate
Name: chorismate -> prephenate
Description: Reaction transforming chorismate into prephenate
Type: state transition
Pathway Components: chorismate - TyrA - prephenate -> prephenate
Components:
Function Name Type
catalyzer TyrA protein
reactant chorismate simple_molecule
inhibitor prephenate simple_molecule
product prephenate simple_molecule
TyrA prephenate hydroxyphenylpyruvate + CO2
Name: prephenate -> hydroxyphenylpyruvate + CO2
Description: Reaction transforming prephenate into hydroxyphenylpyruvate, CO2
Type: state transition
Pathway Components: prephenate - TyrA -> hydroxyphenylpyruvate + CO2
Components:
Function Name Type
product CO2 simple_molecule
catalyzer TyrA protein
product hydroxyphenylpyruvate simple_molecule
reactant prephenate simple_molecule
fumC_mRNA FumC
Name: fumC_mRNA -> FumC
Description: Translation of FumC
Type: translation
Pathway Components: fumC_mRNA -> FumC
Components:
Function Name Type
product FumC protein
reactant fumC_mRNA RNA
FumC superoxide malate fumarate
Name: malate -> fumarate
Description: Reaction transforming malate into fumarate
Type: state transition
Pathway Components: malate - FumC - superoxide -> fumarate
Components:
Function Name Type
catalyzer FumC protein
product fumarate simple_molecule
reactant malate simple_molecule
inhibitor superoxide simple_molecule
yrbL_mRNA YrbL
Name: yrbL_mRNA -> YrbL
Description: Translation of YrbL
Type: translation
Pathway Components: yrbL_mRNA -> YrbL
Components:
Function Name Type
product YrbL protein
reactant yrbL_mRNA RNA
sodA_mRNA SodA
Name: sodA_mRNA -> SodA
Description: Translation of SodA
Type: translation
Pathway Components: sodA_mRNA -> SodA
Components:
Function Name Type
product SodA protein
reactant sodA_mRNA RNA
SodA perhydrol superoxide perhydrol + oxygen
Name: superoxide -> perhydrol + oxygen
Description: Reaction transforming superoxide into perhydrol, oxygen
Type: state transition
Pathway Components: superoxide - SodA - perhydrol -> perhydrol + oxygen
Components:
Function Name Type
catalyzer SodA protein
product oxygen simple_molecule
inhibitor perhydrol simple_molecule
product perhydrol simple_molecule
reactant superoxide simple_molecule
mgtLA_mRNA MgtL
Name: mgtLA_mRNA -> MgtL
Description: Translation of MgtL
Type: translation
Pathway Components: mgtLA_mRNA -> MgtL
Components:
Function Name Type
product MgtL protein
reactant mgtLA_mRNA RNA
mgtLA_mRNA MgtA
Name: mgtLA_mRNA -> MgtA
Description: Translation of MgtA
Type: translation
Pathway Components: mgtLA_mRNA -> MgtA
Components:
Function Name Type
product MgtA protein
reactant mgtLA_mRNA RNA
MgtA magnesium_Ext magnesium
Name: magnesium_Ext -> magnesium
Description: Transport of magnesium_Ext through a bacterial membrane, leading to the presence of magnesium inside the cell.
Type: transport
Pathway Components: magnesium_Ext - MgtA -> magnesium
Components:
Function Name Type
catalyzer MgtA protein
product magnesium simple_molecule
reactant magnesium_Ext simple_molecule
soxS_mRNA SoxS
Name: soxS_mRNA -> SoxS
Description: Translation of SoxS
Type: translation
Pathway Components: soxS_mRNA -> SoxS
Components:
Function Name Type
product SoxS protein
reactant soxS_mRNA RNA
yjcB_mRNA YjcB
Name: yjcB_mRNA -> YjcB
Description: Translation of YjcB
Type: translation
Pathway Components: yjcB_mRNA -> YjcB
Components:
Function Name Type
product YjcB protein
reactant yjcB_mRNA RNA
DAHP chorismate
Name: DAHP -> chorismate
Description: Transformation of DAHP into chorismate by one or more reactions not shown.
Type: complementary pathway reaction
Pathway Components: DAHP / 3-DEHYDROQUINATE-SYNTHASE-RXN / 3-DEHYDROQUINATE-DEHYDRATASE-RXN / SHIKIMATE-5-DEHYDROGENASE-RXN / SHIKIMATE-KINASE-RXN / 2.5.1.19-RXN / CHORISMATE-SYNTHASE-RXN / chorismate
Components:
Function Name Type
reactant DAHP simple_molecule
product chorismate simple_molecule
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