narX:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

narX

Gene Synonym(s)

ECK1216, b1222, JW1213, frdR, narR, frd1[1]

Product Desc.

NarX[2][3]

Two-component nitrate/nittrite sensor-transmitter protein; NarL is cognate regulator; functional redundance with narQ[4]

Product Synonyms(s)

B1222[2], NarR[2], FrdR[2], nitrate/nitrite sensor kinase-phosphotransferase NarX[2], ECK1216, frdR, JW1213, narR, b1222

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): narXL[2], OP00213, narL

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

narX

Mnemonic

Nitrate reductase, nitrate regulation

Synonyms

ECK1216, b1222, JW1213, frdR, narR, frd1[1]

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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

27.48 minutes 

MG1655: 1276841..1275045
<gbrowseImage> name=NC_000913:1275045..1276841 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1277768..1275972
<gbrowseImage> name=NC_012967:1275972..1277768 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1163766..1165562
<gbrowseImage> name=NC_012759:1163766..1165562 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1279195..1277399
<gbrowseImage> name=NC_007779:1277399..1279195 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1317082..1315286
<gbrowseImage> name=NC_010473:1315286..1317082 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ΔnarX (Keio:JW1213)

deletion

deletion

PMID:16738554

Shigen
CGSC9102[5]

ΔnarX733::kan

PMID:16738554

CGSC:102038


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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW1213

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCTTAAACGTTGTCTCTCTCC

Primer 2:CCtTCATGGGTATCTCCTTGGAC

13H6

Kohara Phage

Genobase

PMID:3038334

fadR13::Tn10

Linked marker

CAG18497 = CGSC7365[5]

est. P1 cotransduction: 17% [6]

oppC506::Tn10

Linked marker

CAG12169 = CGSC7369[5]

est. P1 cotransduction: 33% [6]
Synonyms:zch-506::Tn10, zci-506::Tn10

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG10646

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10646

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000639

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945788

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0640

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004099

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

NarX

Synonyms

B1222[2], NarR[2], FrdR[2], nitrate/nitrite sensor kinase-phosphotransferase NarX[2], ECK1216, frdR, JW1213, narR, b1222

Product description

NarX[2][3]

Two-component nitrate/nittrite sensor-transmitter protein; NarL is cognate regulator; functional redundance with narQ[4]

EC number (for enzymes)


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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status

GO:0000155

two-component sensor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003661

F

Seeded from EcoCyc (v14.0)

complete

GO:0000155

two-component sensor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005467

F

Seeded from EcoCyc (v14.0)

complete

GO:0000155

two-component sensor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011712

F

Seeded from EcoCyc (v14.0)

complete

GO:0000155

two-component sensor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016380

F

Seeded from EcoCyc (v14.0)

complete

GO:0000160

two-component signal transduction system (phosphorelay)

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011712

P

Seeded from EcoCyc (v14.0)

complete

GO:0000160

two-component signal transduction system (phosphorelay)

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016380

P

Seeded from EcoCyc (v14.0)

complete

GO:0000160

two-component signal transduction system (phosphorelay)

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0902

P

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0004673

protein histidine kinase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005467

F

Seeded from EcoCyc (v14.0)

complete

GO:0004673

protein histidine kinase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016380

F

Seeded from EcoCyc (v14.0)

complete

GO:0004673

protein histidine kinase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.7.13.3

F

Seeded from EcoCyc (v14.0)

complete

GO:0004871

signal transducer activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003660

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003594

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0067

F

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0007165

signal transduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003660

P

Seeded from EcoCyc (v14.0)

complete

GO:0007165

signal transduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003661

P

Seeded from EcoCyc (v14.0)

complete

GO:0007165

signal transduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005467

P

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003661

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003660

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011712

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016380

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9909

C

Seeded from EcoCyc (v14.0)

complete

GO:0016301

kinase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0418

F

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc (v14.0)

complete

GO:0018106

peptidyl-histidine phosphorylation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005467

P

Seeded from EcoCyc (v14.0)

complete

GO:0042128

nitrate assimilation

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0534

P

Seeded from EcoCyc (v14.0)

complete

GO:0006974

response to DNA damage stimulus

PMID:1197071

IEP: Inferred from Expression Pattern

P

complete

GO:0046983

protein dimerization activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011712

F

Seeded from EcoCyc (v14.0)

complete

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Interactions


NarX

See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

Subunits of NarX

could be indirect


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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes

plasma membrane

From EcoCyc[3]


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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MLKRCLSPLT LVNQVALIVL LSTAIGLAGM AVSGWLVQGV QGSAHAINKA GSLRMQSYRL
LAAVPLSEKD KPLIKEMEQT AFSAELTRAA ERDGQLAQLQ GLQDYWRNEL IPALMRAQNR
ETVSADVSQF VAGLDQLVSG FDRTTEMRIE TVVLVHRVMA VFMALLLVFT IIWLRARLLQ
PWRQLLAMAS AVSHRDFTQR ANISGRNEMA MLGTALNNMS AELAESYAVL EQRVQEKTAG
LEHKNQILSF LWQANRRLHS RAPLCERLSP VLNGLQNLTL LRDIELRVYD TDDEENHQEF
TCQPDMTCDD KGCQLCPRGV LPVGDRGTTL KWRLADSHTQ YGILLATLPQ GRHLSHDQQQ
LVDTLVEQLT ATLALDRHQE RQQQLIVMEE RATIARELHD SIAQSLSCMK MQVSCLQMQG
DALPESSREL LSQIRNELNA SWAQLRELLT TFRLQLTEPG LRPALEASCE EYSAKFGFPV
KLDYQLPPRL VPSHQAIHLL QIAREALSNA LKHSQASEVV VTVAQNDNQV KLTVQDNGCG
VPENAIRSNH YGMIIMRDRA QSLRGDCRVR RRESGGTEVV VTFIPEKTFT DVQGDTHE
Length

598

Mol. Wt

67.083 kDa

pI

6.7 (calculated)

Extinction coefficient

50,420 - 51,795 (calc based on 8 Y, 7 W, and 11 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Domain

158..225

PF00672 HAMP domain

PMID:19920124

Domain

494..586

PF02518 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase

PMID:19920124

Domain

390..457

PF07730 Histidine kinase

PMID:19920124

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<motif_map/>

tmhmm.php?gene=narX&show=pic&.jpg
Click the image to view raw output from TMHMM.

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=narX taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16129185

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945788

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004099

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AFA2

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10646

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10646

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945788

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000639

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0640

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MG1655

64

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

47

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

34

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

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Notes

Transcription and Transcriptional Regulation

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<protect>

See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

narXL

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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:1276821..1276861 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b1222 (EcoliWiki Page)

NCBI GEO profiles for narX

microarray

GenExpDB:b1222 (EcoliWiki Page)

Summary of data for narX from multiple microarray studies

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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (1276752..1277244) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ16; Well:G3[7]

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Notes

Accessions Related to narX Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG10646

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0640

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1222

EcoGene

EcoGene:EG10646

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000639

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004099

Escherichia coli str. K-12 substr. MG1655

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Notes

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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism Homologs (Statistics) Comments

Shigella flexneri

NARX

From SHIGELLACYC

E. coli O157

NARX

From ECOO157CYC

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Do-It-Yourself Web Tools

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Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

Pfam (EcoliWiki Page)

PF02518 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase

Pfam (EcoliWiki Page)

PF00672 HAMP domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:55874

Pfam (EcoliWiki Page)

PF07730 Histidine kinase

EcoCyc

EcoCyc:EG10646

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10646

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000639

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0640

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004099

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
  7. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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