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


Gensor Unit Map          
nickel nickel_Ext NikA NikB NikC NikD NikE NikR nikABCDER nikABCDER_mRNA phosphate NikR nickel NikD NikE NikB NikC NikA


Gensor Unit       
Name: NikR
Description: Molecular biology level
Detailed: In the presence of nickel, NikR negatively regulates the expression of genes required for nickel import into cell. Under this condition, NikR is modified to NikR-nickel, binds its target sites preventing its own expression and the expression of its regulated genes. In the absence of nickel, NikR unbinds its target sites enabling the expression of its regulated genes.
Less detailed: In the presence of nickel, NikR negatively regulates the expression of genes needed for nickel import into cell.

Physiology level
Detailed: The presence of nickel inhibits the expression of genes involved with nickel import into cell. Under this condition the genes necessary for nickel import into cell are not expressed.
Less detailed: The presence of nickel inhibits the expression of genes needful for nickel import into cell.
Classification:
Groups: Unclassified Gensor Units
Gene Ontology Terms (GO): biological_process GO:0099132 - ATP hydrolysis coupled cation transmembrane transport
GO:0006974 - cellular response to DNA damage stimulus
GO:0072511 - divalent inorganic cation transport
GO:0050919 - negative chemotaxis
GO:0035444 - nickel cation transmembrane transport
GO:0015675 - nickel cation transport
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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:0005887 - integral component of plasma membrane
GO:0030288 - outer membrane-bounded periplasmic space
GO:0042597 - periplasmic space
GO:0005886 - plasma membrane
molecular_function GO:0005524 - ATP binding
GO:0003677 - DNA binding
GO:0020037 - heme binding
GO:0051540 - metal cluster binding
GO:0016151 - nickel cation binding
GO:0015099 - nickel cation transmembrane transporter activity
GO:0015413 - nickel-transporting ATPase activity
Read more >
Components: Show/Hide Components Table (20 more...)
Function Name Type
simple_molecule Cadmium simple_molecule
simple_molecule Cu(II) simple_molecule
protein NikA protein
protein NikB protein
protein NikC protein
protein NikD protein
complex NikD-NikE-NikB-NikC-NikA complex
protein NikE protein
protein NikR protein
complex NikR-Cadmium complex
complex NikR-Cu(II) complex
complex NikR-Zinc complex
complex NikR-cobalt ion complex
complex NikR-nickel complex
simple_molecule Zinc simple_molecule
simple_molecule cobalt ion simple_molecule
simple_molecule nickel simple_molecule
simple_molecule nickel_Ext simple_molecule
gene nikABCDER gene
RNA nikABCDER_mRNA RNA


Reactions       
Showing 14 reactions
Cadmium + NikR NikR-Cadmium
Name: Cadmium + NikR -> NikR-Cadmium
Description: Reaction transforming Cadmium, NikR into NikR-Cadmium
Type: state transition
Pathway Components: Cadmium + NikR -> NikR-Cadmium
Components:
Function Name Type Evidence Reference(s)
reactant Cadmium simple_molecule nd nd
reactant NikR protein nd nd
product NikR-Cadmium complex nd nd
NikR-Cadmium NikR-Cu(II) NikR-Zinc NikR-cobalt ion NikR-nickel nikABCDER nikABCDER_mRNA
Name: nikABCDER -> nikABCDER_mRNA
Description: Transcription of transcription unit nikABCDER. Reaction inhibition by NikR-Cadmium, NikR-Cu(II), NikR-Zinc, NikR-cobalt ion, and NikR-nickel.
Type: transcription
Pathway Components: nikABCDER - NikR-Cadmium - NikR-Cu(II) - NikR-Zinc - NikR-cobalt ion - NikR-nickel -> nikABCDER_mRNA
Components:
Function Name Type Evidence Reference(s)
inhibitor NikR-Cadmium complex nd nd
inhibitor NikR-Cu(II) complex nd nd
inhibitor NikR-Zinc complex nd nd
inhibitor NikR-cobalt ion complex nd nd
inhibitor NikR-nickel complex nd nd
reactant nikABCDER gene nd nd
product nikABCDER_mRNA RNA nd nd
cobalt ion + NikR NikR-cobalt ion
Name: cobalt ion + NikR -> NikR-cobalt ion
Description: Reaction transforming cobalt ion, NikR into NikR-cobalt ion
Type: state transition
Pathway Components: cobalt ion + NikR -> NikR-cobalt ion
Components:
Function Name Type Evidence Reference(s)
reactant NikR protein nd nd
product NikR-cobalt ion complex nd nd
reactant cobalt ion simple_molecule nd nd
Cu(II) + NikR NikR-Cu(II)
Name: Cu(II) + NikR -> NikR-Cu(II)
Description: Reaction transforming Cu(II), NikR into NikR-Cu(II)
Type: state transition
Pathway Components: Cu(II) + NikR -> NikR-Cu(II)
Components:
Function Name Type Evidence Reference(s)
reactant Cu(II) simple_molecule nd nd
reactant NikR protein nd nd
product NikR-Cu(II) complex nd nd
nickel + NikR NikR-nickel
Name: nickel + NikR -> NikR-nickel
Description: Reaction transforming nickel, NikR into NikR-nickel
Type: state transition
Pathway Components: nickel + NikR -> NikR-nickel
Components:
Function Name Type Evidence Reference(s)
reactant NikR protein nd nd
product NikR-nickel complex nd nd
reactant nickel simple_molecule nd nd
Zinc + NikR NikR-Zinc
Name: Zinc + NikR -> NikR-Zinc
Description: Reaction transforming Zinc, NikR into NikR-Zinc
Type: state transition
Pathway Components: Zinc + NikR -> NikR-Zinc
Components:
Function Name Type Evidence Reference(s)
reactant NikR protein nd nd
product NikR-Zinc complex nd nd
reactant Zinc simple_molecule nd nd
nikABCDER_mRNA NikA
Name: nikABCDER_mRNA -> NikA
Description: Translation of NikA
Type: translation
Pathway Components: nikABCDER_mRNA -> NikA
Components:
Function Name Type Evidence Reference(s)
product NikA protein nd nd
reactant nikABCDER_mRNA RNA nd nd
NikE + NikA + NikC + NikD + NikB NikD-NikE-NikB-NikC-NikA
Name: NikE + NikA + NikC + NikD + NikB -> NikD-NikE-NikB-NikC-NikA
Description: Reaction transforming NikE, NikA, NikC, NikD, NikB into NikD-NikE-NikB-NikC-NikA
Type: state transition
Pathway Components: NikE + NikA + NikC + NikD + NikB -> NikD-NikE-NikB-NikC-NikA
Components:
Function Name Type Evidence Reference(s)
reactant NikA protein nd nd
reactant NikB protein nd nd
reactant NikC protein nd nd
reactant NikD protein nd nd
product NikD-NikE-NikB-NikC-NikA complex nd nd
reactant NikE protein nd nd
NikD-NikE-NikB-NikC-NikA nickel_Ext nickel
Name: nickel_Ext -> nickel
Description: Transport of nickel_Ext through a bacterial membrane, leading to the presence of nickel inside the cell.
Type: transport
Pathway Components: nickel_Ext - NikD-NikE-NikB-NikC-NikA -> nickel
Components:
Function Name Type Evidence Reference(s)
catalyzer NikD-NikE-NikB-NikC-NikA complex nd nd
product nickel simple_molecule nd nd
reactant nickel_Ext simple_molecule nd nd
nikABCDER_mRNA NikB
Name: nikABCDER_mRNA -> NikB
Description: Translation of NikB
Type: translation
Pathway Components: nikABCDER_mRNA -> NikB
Components:
Function Name Type Evidence Reference(s)
product NikB protein nd nd
reactant nikABCDER_mRNA RNA nd nd
nikABCDER_mRNA NikC
Name: nikABCDER_mRNA -> NikC
Description: Translation of NikC
Type: translation
Pathway Components: nikABCDER_mRNA -> NikC
Components:
Function Name Type Evidence Reference(s)
product NikC protein nd nd
reactant nikABCDER_mRNA RNA nd nd
nikABCDER_mRNA NikD
Name: nikABCDER_mRNA -> NikD
Description: Translation of NikD
Type: translation
Pathway Components: nikABCDER_mRNA -> NikD
Components:
Function Name Type Evidence Reference(s)
product NikD protein nd nd
reactant nikABCDER_mRNA RNA nd nd
nikABCDER_mRNA NikE
Name: nikABCDER_mRNA -> NikE
Description: Translation of NikE
Type: translation
Pathway Components: nikABCDER_mRNA -> NikE
Components:
Function Name Type Evidence Reference(s)
product NikE protein nd nd
reactant nikABCDER_mRNA RNA nd nd
nikABCDER_mRNA NikR
Name: nikABCDER_mRNA -> NikR
Description: Translation of NikR
Type: translation
Pathway Components: nikABCDER_mRNA -> NikR
Components:
Function Name Type Evidence Reference(s)
product NikR protein nd nd
reactant nikABCDER_mRNA RNA nd nd



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