RegulonDB RegulonDB

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


Gensor Unit Map          
uridine-diphosphate thioredoxin disulfide dATP YgaN nucleoside triphosphate oxidized NrdH glutaredoxin-like protein active ribonucleoside triphosphate reductase NrdR NrdE NrdB Zinc FldA dGTP deoxynucleoside diphosphate NrdF cytidine-diphosphate NrdD guanosine-triphosphate NrdR adenylpyrophosphate NrdA NrdF SAM Zinc NrdG nrdDG dUTP adenylpyrophosphate dADP dGDP deoxynucleoside triphosphate NrdR 5'-deoxyadenosine nrdHIEF nucleoside diphosphate nrdHIEF_mRNA reduced thioredoxin NrdG NrdD methionine NrdA dATP nrdDG_mRNA NrdR dUDP NrdE cytidine-triphosphate NrdI nrdAB-yfaE YfaE dCDP CO2 formate inactive ribonucleoside triphosphate reductase NrdB dCTP flavodoxin semiquinone uridine-triphosphate nrdAB-yfaE_mRNA guanosine-diphosphate NrdH formate dATP dGDP formate dATP dADP reduced thioredoxin


Gensor Unit       
Name: NrdR
Description: Molecular biology level
Detailed: In the presence of zinc, NrdR negatively regulates the expression of genes required for deoxyribonucleoside triphosphate biosynthetic process and positive regulation of ribonucleoside-triphosphate reductase activity. Under these conditions, NrdR is modified to NrdR-Zn, binds its target sites preventing the expression of its regulated genes. In the absence of Zn, NrdR unbinds its target sites enabling the expression of its regulated genes.
Less detailed: In the presence of zinc, NrdR negatively regulates the expression of genes needed for deoxyribonucleoside triphosphate biosynthetic process and positive regulation of ribonucleoside-triphosphate reductase activity.

Physiology level
Detailed: The presence of Zn inhibits the expression of genes involved with deoxyribonucleoside triphosphate biosynthetic process and positive regulation of ribonucleoside-triphosphate reductase activity. Under these conditions the genes necessary for conversion of a nucleoside triphosphate to a deoxynucleoside triphosphate and conversion of ribonucleoside triphosphate reductase from inactive to active state are not expressed.
Less detailed: The presence of Zn inhibits the expression of genes needful for conversion of a nucleoside triphosphate to a deoxynucleoside triphosphate and conversion of ribonucleoside triphosphate reductase from inactive to active state.
Classification:
Groups: General function prediction only
Posttranslational modification, protein turnover, chaperones
Transcription
Energy production and conversion
Nucleotide transport and metabolism
Gene Ontology Terms (GO): biological_process GO:0009265 - 2'-deoxyribonucleotide biosynthetic process
GO:0006260 - DNA replication
GO:0045454 - cell redox homeostasis
GO:0006464 - cellular protein modification process
GO:0009263 - deoxyribonucleotide biosynthetic process
GO:0022900 - electron transport chain
Read more >
cellular_component GO:0031250 - anaerobic ribonucleoside-triphosphate reductase complex
GO:0005737 - cytoplasm
GO:0005829 - cytosol
GO:0005971 - ribonucleoside-diphosphate reductase complex
molecular_function GO:0051537 - 2 iron, 2 sulfur cluster binding
GO:0051539 - 4 iron, 4 sulfur cluster binding
GO:0005524 - ATP binding
GO:0051065 - CTP reductase activity
GO:0010181 - FMN binding
GO:0043365 - [formate-C-acetyltransferase]-activating enzyme activity
GO:0003824 - catalytic activity
Read more >
Components:
  Function Name Type
  simple_molecule 5'-deoxyadenosine simple_molecule
  simple_molecule CO2 simple_molecule
  simple_molecule FldA simple_molecule
  protein NrdA protein
  complex NrdA-NrdB complex
  protein NrdB protein
  protein NrdD protein
  complex NrdD-NrdG complex
  protein NrdE protein
  complex NrdE-NrdF complex
  protein NrdF protein
  protein NrdG protein
  protein NrdH protein
  protein NrdI protein
  protein NrdR protein
  complex NrdR-Zinc complex
  complex NrdR-adenylpyrophosphate complex
  complex NrdR-dATP complex
  simple_molecule SAM simple_molecule
  protein YfaE protein
  simple_molecule YgaN simple_molecule
  simple_molecule Zinc simple_molecule
  simple_molecule active ribonucleoside triphosphate reductase simple_molecule
  simple_molecule adenylpyrophosphate simple_molecule
  simple_molecule cytidine-diphosphate simple_molecule
  simple_molecule cytidine-triphosphate simple_molecule
  simple_molecule dADP simple_molecule
  simple_molecule dATP simple_molecule
  simple_molecule dCDP simple_molecule
  simple_molecule dCTP simple_molecule
  simple_molecule dGDP simple_molecule
  simple_molecule dGTP simple_molecule
  simple_molecule dUDP simple_molecule
  simple_molecule dUTP simple_molecule
  simple_molecule deoxynucleoside diphosphate simple_molecule
  simple_molecule deoxynucleoside triphosphate simple_molecule
  simple_molecule flavodoxin semiquinone simple_molecule
  simple_molecule formate simple_molecule
  simple_molecule guanosine-diphosphate simple_molecule
  simple_molecule guanosine-triphosphate simple_molecule
  simple_molecule inactive ribonucleoside triphosphate reductase simple_molecule
  simple_molecule methionine simple_molecule
  gene nrdAB-yfaE gene
  RNA nrdAB-yfaE_mRNA RNA
  gene nrdDG gene
  RNA nrdDG_mRNA RNA
  gene nrdHIEF gene
  RNA nrdHIEF_mRNA RNA
  simple_molecule nucleoside diphosphate simple_molecule
  simple_molecule nucleoside triphosphate simple_molecule
  simple_molecule oxidized NrdH glutaredoxin-like protein simple_molecule
  simple_molecule reduced thioredoxin simple_molecule
  simple_molecule thioredoxin disulfide simple_molecule
  simple_molecule uridine-diphosphate simple_molecule
  simple_molecule uridine-triphosphate simple_molecule


Reactions       
Showing 36 reactions
NrdR + Zinc NrdR-Zinc
Name: NrdR + Zinc -> NrdR-Zinc
Description: Reaction transforming NrdR, Zinc into NrdR-Zinc
Type: state transition
Pathway Components: NrdR + Zinc -> NrdR-Zinc
Components:
Function Name Type
reactant NrdR protein
product NrdR-Zinc complex
reactant Zinc simple_molecule
NrdR-Zinc nrdAB-yfaE nrdAB-yfaE_mRNA
Name: nrdAB-yfaE -> nrdAB-yfaE_mRNA
Description: Transcription of transcription unit nrdAB-yfaE. Reaction inhibition by NrdR-Zinc.
Type: transcription
Pathway Components: nrdAB-yfaE - NrdR-Zinc -> nrdAB-yfaE_mRNA
Components:
Function Name Type
inhibitor NrdR-Zinc complex
reactant nrdAB-yfaE gene
product nrdAB-yfaE_mRNA RNA
NrdR-Zinc nrdDG nrdDG_mRNA
Name: nrdDG -> nrdDG_mRNA
Description: Transcription of transcription unit nrdDG. Reaction inhibition by NrdR-Zinc.
Type: transcription
Pathway Components: nrdDG - NrdR-Zinc -> nrdDG_mRNA
Components:
Function Name Type
inhibitor NrdR-Zinc complex
reactant nrdDG gene
product nrdDG_mRNA RNA
NrdR-Zinc nrdHIEF nrdHIEF_mRNA
Name: nrdHIEF -> nrdHIEF_mRNA
Description: Transcription of transcription unit nrdHIEF. Reaction inhibition by NrdR-Zinc.
Type: transcription
Pathway Components: nrdHIEF - NrdR-Zinc -> nrdHIEF_mRNA
Components:
Function Name Type
inhibitor NrdR-Zinc complex
reactant nrdHIEF gene
product nrdHIEF_mRNA RNA
adenylpyrophosphate + NrdR NrdR-adenylpyrophosphate
Name: adenylpyrophosphate + NrdR -> NrdR-adenylpyrophosphate
Description: Reaction transforming adenylpyrophosphate, NrdR into NrdR-adenylpyrophosphate
Type: state transition
Pathway Components: adenylpyrophosphate + NrdR -> NrdR-adenylpyrophosphate
Components:
Function Name Type
reactant NrdR protein
product NrdR-adenylpyrophosphate complex
reactant adenylpyrophosphate simple_molecule
dATP + NrdR NrdR-dATP
Name: dATP + NrdR -> NrdR-dATP
Description: Reaction transforming dATP, NrdR into NrdR-dATP
Type: state transition
Pathway Components: dATP + NrdR -> NrdR-dATP
Components:
Function Name Type
reactant NrdR protein
product NrdR-dATP complex
reactant dATP simple_molecule
nrdAB-yfaE_mRNA NrdA
Name: nrdAB-yfaE_mRNA -> NrdA
Description: Translation of NrdA
Type: translation
Pathway Components: nrdAB-yfaE_mRNA -> NrdA
Components:
Function Name Type
product NrdA protein
reactant nrdAB-yfaE_mRNA RNA
NrdA + NrdB NrdA-NrdB
Name: NrdA + NrdB -> NrdA-NrdB
Description: Reaction transforming NrdA, NrdB into NrdA-NrdB
Type: state transition
Pathway Components: NrdA + NrdB -> NrdA-NrdB
Components:
Function Name Type
reactant NrdA protein
product NrdA-NrdB complex
reactant NrdB protein
NrdA-NrdB NrdE-NrdF dATP dCDP nucleoside diphosphate + reduced thioredoxin Products
Name: nucleoside diphosphate + reduced thioredoxin -> deoxynucleoside diphosphate + thioredoxin disulfide
Description: Reaction transforming nucleoside diphosphate, reduced thioredoxin into deoxynucleoside diphosphate, thioredoxin disulfide
Type: state transition
Pathway Components: nucleoside diphosphate + reduced thioredoxin - NrdA-NrdB - NrdE-NrdF - dATP - dCDP -> deoxynucleoside diphosphate + thioredoxin disulfide
Components:
Function Name Type
catalyzer NrdA-NrdB complex
catalyzer NrdE-NrdF complex
inhibitor dATP simple_molecule
inhibitor dCDP simple_molecule
product deoxynucleoside diphosphate simple_molecule
reactant nucleoside diphosphate simple_molecule
reactant reduced thioredoxin simple_molecule
product thioredoxin disulfide simple_molecule
NrdA-NrdB cytidine-diphosphate + reduced thioredoxin thioredoxin disulfide + dCDP
Name: cytidine-diphosphate + reduced thioredoxin -> thioredoxin disulfide + dCDP
Description: Reaction transforming cytidine-diphosphate, reduced thioredoxin into thioredoxin disulfide, dCDP
Type: state transition
Pathway Components: cytidine-diphosphate + reduced thioredoxin - NrdA-NrdB -> thioredoxin disulfide + dCDP
Components:
Function Name Type
catalyzer NrdA-NrdB complex
reactant cytidine-diphosphate simple_molecule
product dCDP simple_molecule
reactant reduced thioredoxin simple_molecule
product thioredoxin disulfide simple_molecule
NrdA-NrdB uridine-diphosphate + reduced thioredoxin thioredoxin disulfide + dUDP
Name: uridine-diphosphate + reduced thioredoxin -> thioredoxin disulfide + dUDP
Description: Reaction transforming uridine-diphosphate, reduced thioredoxin into thioredoxin disulfide, dUDP
Type: state transition
Pathway Components: uridine-diphosphate + reduced thioredoxin - NrdA-NrdB -> thioredoxin disulfide + dUDP
Components:
Function Name Type
catalyzer NrdA-NrdB complex
product dUDP simple_molecule
reactant reduced thioredoxin simple_molecule
product thioredoxin disulfide simple_molecule
reactant uridine-diphosphate simple_molecule
NrdA-NrdB reduced thioredoxin thioredoxin disulfide + dADP
Name: reduced thioredoxin -> thioredoxin disulfide + dADP
Description: Reaction transforming reduced thioredoxin into thioredoxin disulfide, dADP
Type: state transition
Pathway Components: reduced thioredoxin - NrdA-NrdB -> thioredoxin disulfide + dADP
Components:
Function Name Type
catalyzer NrdA-NrdB complex
product dADP simple_molecule
reactant reduced thioredoxin simple_molecule
product thioredoxin disulfide simple_molecule
NrdA-NrdB guanosine-diphosphate + reduced thioredoxin thioredoxin disulfide + dGDP
Name: guanosine-diphosphate + reduced thioredoxin -> thioredoxin disulfide + dGDP
Description: Reaction transforming guanosine-diphosphate, reduced thioredoxin into thioredoxin disulfide, dGDP
Type: state transition
Pathway Components: guanosine-diphosphate + reduced thioredoxin - NrdA-NrdB -> thioredoxin disulfide + dGDP
Components:
Function Name Type
catalyzer NrdA-NrdB complex
product dGDP simple_molecule
reactant guanosine-diphosphate simple_molecule
reactant reduced thioredoxin simple_molecule
product thioredoxin disulfide simple_molecule
nrdAB-yfaE_mRNA NrdB
Name: nrdAB-yfaE_mRNA -> NrdB
Description: Translation of NrdB
Type: translation
Pathway Components: nrdAB-yfaE_mRNA -> NrdB
Components:
Function Name Type
product NrdB protein
reactant nrdAB-yfaE_mRNA RNA
nrdAB-yfaE_mRNA YfaE
Name: nrdAB-yfaE_mRNA -> YfaE
Description: Translation of YfaE
Type: translation
Pathway Components: nrdAB-yfaE_mRNA -> YfaE
Components:
Function Name Type
product YfaE protein
reactant nrdAB-yfaE_mRNA RNA
nrdDG_mRNA NrdD
Name: nrdDG_mRNA -> NrdD
Description: Translation of NrdD
Type: translation
Pathway Components: nrdDG_mRNA -> NrdD
Components:
Function Name Type
product NrdD protein
reactant nrdDG_mRNA RNA
NrdD dATP nucleoside triphosphate + formate deoxynucleoside triphosphate + CO2
Name: nucleoside triphosphate + formate -> deoxynucleoside triphosphate + CO2
Description: Reaction transforming nucleoside triphosphate, formate into deoxynucleoside triphosphate, CO2
Type: state transition
Pathway Components: nucleoside triphosphate + formate - NrdD - dATP -> deoxynucleoside triphosphate + CO2
Components:
Function Name Type
product CO2 simple_molecule
catalyzer NrdD protein
inhibitor dATP simple_molecule
product deoxynucleoside triphosphate simple_molecule
reactant formate simple_molecule
reactant nucleoside triphosphate simple_molecule
NrdD dATP dGTP formate dATP + CO2
Name: formate -> dATP + CO2
Description: Reaction transforming formate into dATP, CO2
Type: state transition
Pathway Components: formate - NrdD - dATP - dGTP -> dATP + CO2
Components:
Function Name Type
product CO2 simple_molecule
catalyzer NrdD protein
inhibitor dATP simple_molecule
product dATP simple_molecule
inhibitor dGTP simple_molecule
reactant formate simple_molecule
NrdD dATP guanosine-triphosphate + formate dGTP + CO2
Name: guanosine-triphosphate + formate -> dGTP + CO2
Description: Reaction transforming guanosine-triphosphate, formate into dGTP, CO2
Type: state transition
Pathway Components: guanosine-triphosphate + formate - NrdD - dATP -> dGTP + CO2
Components:
Function Name Type
product CO2 simple_molecule
catalyzer NrdD protein
inhibitor dATP simple_molecule
product dGTP simple_molecule
reactant formate simple_molecule
reactant guanosine-triphosphate simple_molecule
NrdD dATP uridine-triphosphate + formate dUTP + CO2
Name: uridine-triphosphate + formate -> dUTP + CO2
Description: Reaction transforming uridine-triphosphate, formate into dUTP, CO2
Type: state transition
Pathway Components: uridine-triphosphate + formate - NrdD - dATP -> dUTP + CO2
Components:
Function Name Type
product CO2 simple_molecule
catalyzer NrdD protein
inhibitor dATP simple_molecule
product dUTP simple_molecule
reactant formate simple_molecule
reactant uridine-triphosphate simple_molecule
NrdD dATP cytidine-triphosphate + formate dCTP + CO2
Name: cytidine-triphosphate + formate -> dCTP + CO2
Description: Reaction transforming cytidine-triphosphate, formate into dCTP, CO2
Type: state transition
Pathway Components: cytidine-triphosphate + formate - NrdD - dATP -> dCTP + CO2
Components:
Function Name Type
product CO2 simple_molecule
catalyzer NrdD protein
reactant cytidine-triphosphate simple_molecule
inhibitor dATP simple_molecule
product dCTP simple_molecule
reactant formate simple_molecule
NrdD + NrdG NrdD-NrdG
Name: NrdD + NrdG -> NrdD-NrdG
Description: Reaction transforming NrdD, NrdG into NrdD-NrdG
Type: state transition
Pathway Components: NrdD + NrdG -> NrdD-NrdG
Components:
Function Name Type
reactant NrdD protein
product NrdD-NrdG complex
reactant NrdG protein
nrdDG_mRNA NrdG
Name: nrdDG_mRNA -> NrdG
Description: Translation of NrdG
Type: translation
Pathway Components: nrdDG_mRNA -> NrdG
Components:
Function Name Type
product NrdG protein
reactant nrdDG_mRNA RNA
NrdG Reactants Products
Name: inactive ribonucleoside triphosphate reductase + FldA + SAM -> active ribonucleoside triphosphate reductase + flavodoxin semiquinone + 5'-deoxyadenosine + methionine
Description: Reaction transforming inactive ribonucleoside triphosphate reductase, FldA, SAM into active ribonucleoside triphosphate reductase, flavodoxin semiquinone , 5'-deoxyadenosine , methionine
Type: state transition
Pathway Components: inactive ribonucleoside triphosphate reductase + FldA + SAM - NrdG -> active ribonucleoside triphosphate reductase + flavodoxin semiquinone + 5'-deoxyadenosine + methionine
Components:
Function Name Type
product 5'-deoxyadenosine simple_molecule
reactant FldA simple_molecule
catalyzer NrdG protein
reactant SAM simple_molecule
product active ribonucleoside triphosphate reductase simple_molecule
product flavodoxin semiquinone simple_molecule
reactant inactive ribonucleoside triphosphate reductase simple_molecule
product methionine simple_molecule
nrdHIEF_mRNA NrdH
Name: nrdHIEF_mRNA -> NrdH
Description: Translation of NrdH
Type: translation
Pathway Components: nrdHIEF_mRNA -> NrdH
Components:
Function Name Type
product NrdH protein
reactant nrdHIEF_mRNA RNA
nrdHIEF_mRNA NrdI
Name: nrdHIEF_mRNA -> NrdI
Description: Translation of NrdI
Type: translation
Pathway Components: nrdHIEF_mRNA -> NrdI
Components:
Function Name Type
product NrdI protein
reactant nrdHIEF_mRNA RNA
nrdHIEF_mRNA NrdE
Name: nrdHIEF_mRNA -> NrdE
Description: Translation of NrdE
Type: translation
Pathway Components: nrdHIEF_mRNA -> NrdE
Components:
Function Name Type
product NrdE protein
reactant nrdHIEF_mRNA RNA
NrdF + NrdE NrdE-NrdF
Name: NrdF + NrdE -> NrdE-NrdF
Description: Reaction transforming NrdF, NrdE into NrdE-NrdF
Type: state transition
Pathway Components: NrdF + NrdE -> NrdE-NrdF
Components:
Function Name Type
reactant NrdE protein
product NrdE-NrdF complex
reactant NrdF protein
NrdE-NrdF cytidine-diphosphate + YgaN oxidized NrdH glutaredoxin-like protein + dCDP
Name: cytidine-diphosphate + YgaN -> oxidized NrdH glutaredoxin-like protein + dCDP
Description: Reaction transforming cytidine-diphosphate, YgaN into oxidized NrdH glutaredoxin-like protein, dCDP
Type: state transition
Pathway Components: cytidine-diphosphate + YgaN - NrdE-NrdF -> oxidized NrdH glutaredoxin-like protein + dCDP
Components:
Function Name Type
catalyzer NrdE-NrdF complex
reactant YgaN simple_molecule
reactant cytidine-diphosphate simple_molecule
product dCDP simple_molecule
product oxidized NrdH glutaredoxin-like protein simple_molecule
NrdE-NrdF guanosine-diphosphate + YgaN oxidized NrdH glutaredoxin-like protein + dGDP
Name: guanosine-diphosphate + YgaN -> oxidized NrdH glutaredoxin-like protein + dGDP
Description: Reaction transforming guanosine-diphosphate, YgaN into oxidized NrdH glutaredoxin-like protein, dGDP
Type: state transition
Pathway Components: guanosine-diphosphate + YgaN - NrdE-NrdF -> oxidized NrdH glutaredoxin-like protein + dGDP
Components:
Function Name Type
catalyzer NrdE-NrdF complex
reactant YgaN simple_molecule
product dGDP simple_molecule
reactant guanosine-diphosphate simple_molecule
product oxidized NrdH glutaredoxin-like protein simple_molecule
NrdE-NrdF YgaN oxidized NrdH glutaredoxin-like protein + dADP
Name: YgaN -> oxidized NrdH glutaredoxin-like protein + dADP
Description: Reaction transforming YgaN into oxidized NrdH glutaredoxin-like protein, dADP
Type: state transition
Pathway Components: YgaN - NrdE-NrdF -> oxidized NrdH glutaredoxin-like protein + dADP
Components:
Function Name Type
catalyzer NrdE-NrdF complex
reactant YgaN simple_molecule
product dADP simple_molecule
product oxidized NrdH glutaredoxin-like protein simple_molecule
NrdE-NrdF uridine-diphosphate + YgaN oxidized NrdH glutaredoxin-like protein + dUDP
Name: uridine-diphosphate + YgaN -> oxidized NrdH glutaredoxin-like protein + dUDP
Description: Reaction transforming uridine-diphosphate, YgaN into oxidized NrdH glutaredoxin-like protein, dUDP
Type: state transition
Pathway Components: uridine-diphosphate + YgaN - NrdE-NrdF -> oxidized NrdH glutaredoxin-like protein + dUDP
Components:
Function Name Type
catalyzer NrdE-NrdF complex
reactant YgaN simple_molecule
product dUDP simple_molecule
product oxidized NrdH glutaredoxin-like protein simple_molecule
reactant uridine-diphosphate simple_molecule
nrdHIEF_mRNA NrdF
Name: nrdHIEF_mRNA -> NrdF
Description: Translation of NrdF
Type: translation
Pathway Components: nrdHIEF_mRNA -> NrdF
Components:
Function Name Type
product NrdF protein
reactant nrdHIEF_mRNA RNA
dADP formate
Name: dADP -> formate
Description: Transformation of dADP into formate by one or more reactions not shown.
Type: complementary pathway reaction
Pathway Components: dADP / DADPKIN-RXN / formate
Components:
Function Name Type
reactant dADP simple_molecule
product formate simple_molecule
dGDP formate
Name: dGDP -> formate
Description: Transformation of dGDP into formate by one or more reactions not shown.
Type: complementary pathway reaction
Pathway Components: dGDP / DGDPKIN-RXN / formate
Components:
Function Name Type
reactant dGDP simple_molecule
product formate simple_molecule
dADP dATP
Name: dADP -> dATP
Description: Transformation of dADP into dATP by one or more reactions not shown.
Type: complementary pathway reaction
Pathway Components: dADP / dATP
Components:
Function Name Type
reactant dADP simple_molecule
product dATP simple_molecule
R1 R2 R3 R4 R5 R6 R7 R8 R9 R10 R11 R12 R13 R14 R15 R16 R17 R18 R19 R20 R21 R22 R23 R24 R25 R26 R27 R28 R29 R30 R31 R32 R33 R34 R35 R36



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