narL:On One Page

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

Quickview

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Standard Name

narL

Gene Synonym(s)

ECK1215, b1221, JW1212, frdR, narR[1]

Product Desc.

NarL transcriptional dual regulator[2][3]

Two-component regulator protein for nitrate/nitrite response; cognate sensor is NarX[4]

Product Synonyms(s)

B1221[2], NarR[2], pleiotrophic regulation of anaerobic respiration: response regulator for nar, frd, dms and tor genes; (sensors, narX, narQ)[2], FrdR[2], nitrate/nitrite response regulator NarL[2], unphosphorylated nitrate/nitrite response regulator NarL[2], unmodified nitrate/nitrite response regulator NarL[2] , ECK1215, frdR, JW1212, b1221

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

narL

Mnemonic

Nitrate reductase, nitrate regulation

Synonyms

ECK1215, b1221, JW1212, frdR, narR[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

27.47 minutes 

MG1655: 1275052..1274402
<gbrowseImage> name=NC_000913:1274402..1275052 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1275979..1275329
<gbrowseImage> name=NC_012967:1275329..1275979 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1163123..1163773
<gbrowseImage> name=NC_012759:1163123..1163773 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1277406..1276756
<gbrowseImage> name=NC_007779:1276756..1277406 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1315293..1314643
<gbrowseImage> name=NC_010473:1314643..1315293 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

narL(del) (Keio:JW1212)

deletion

deletion

PMID:16738554

Shigen

CGSC9101[5]

narL(del)::kan

deletion

Biolog:respiration

unable to respire D-Mannose

PMID:16095938

narL732(del)::kan

PMID:16738554

CGSC:102026

nar-215::Tn10

Enzyme Activity

mutant is narL - and has reduced Nitrate Reductase Activity

PMID:7047497

Experimental strain: RK5278

table 5

nar-215::Tn10

Enzyme Activity

mutant is narL - and has decreased formate activity

PMID:7047497

Experimental Strain: RK5278

Table 5

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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

JW1212

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAGTAATCAGGAACCGGCTAC

Primer 2:CCGAAAATGCGCTCCTGATGCAC

13H6

Kohara Phage

Genobase

PMID:3038334

fadR13::Tn10

Linked marker

CAG18497 = CGSC7365[5]

est. P1 cotransduction: 18% [6]

oppC506::Tn10

Linked marker

CAG12169 = CGSC7369[5]

est. P1 cotransduction: 32% [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:EG10643

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10643

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000636

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945795

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0637

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004097

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

NarL

Synonyms

B1221[2], NarR[2], pleiotrophic regulation of anaerobic respiration: response regulator for nar, frd, dms and tor genes; (sensors, narX, narQ)[2], FrdR[2], nitrate/nitrite response regulator NarL[2], unphosphorylated nitrate/nitrite response regulator NarL[2], unmodified nitrate/nitrite response regulator NarL[2] , ECK1215, frdR, JW1212, b1221

Product description

NarL transcriptional dual regulator[2][3]

Two-component regulator protein for nitrate/nitrite response; cognate sensor is NarX[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:0000156

two-component response regulator activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001789

F

Seeded from EcoCyc (v14.0)

complete

GO:0000156

two-component response regulator activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016032

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:IPR001789

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:IPR016032

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:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016032

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000792

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:0005622

intracellular

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000792

C

Seeded from EcoCyc (v14.0)

complete

GO:0005622

intracellular

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016032

C

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000792

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001789

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016032

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:0043565

sequence-specific DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000792

F

Seeded from EcoCyc (v14.0)

complete

Interactions

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

yicI

PMID:16606699

Experiment(s):EBI-1139219

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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

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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

MSNQEPATIL LIDDHPMLRT GVKQLISMAP DITVVGEASN GEQGIELAES LDPDLILLDL
NMPGMNGLET LDKLREKSLS GRIVVFSVSN HEEDVVTALK RGADGYLLKD MEPEDLLKAL
HQAAAGEMVL SEALTPVLAA SLRANRATTE RDVNQLTPRE RDILKLIAQG LPNKMIARRL
DITESTVKVH VKHMLKKMKL KSRVEAAVWV HQERIF
Length

216

Mol. Wt

23.927 kDa

pI

6.0 (calculated)

Extinction coefficient

6,990 (calc based on 1 Y, 1 W, and 0 C residues)


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

153..210

PF00196 Bacterial regulatory proteins, luxR family

PMID:19920124

Domain

9..121

PF00072 Response regulator receiver domain

PMID:19920124

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

Structures

<beststructure> gene=narL 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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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

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:16129184

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945795

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004097

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AF28

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10643

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10643

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945795

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000636

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0637

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 MC4100

2.29E+02

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

E. coli K-12 MG1655

1667

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

1224

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

799

molecules/cell/generation

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

Ribosome Profiling

PMID: 24766808

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

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_000913:1275032..1275072 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


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

Type Reference Notes

microarray

GEO Profiles:b1221 (EcoliWiki Page)

NCBI GEO profiles for narL

microarray

GenExpDB:b1221 (EcoliWiki Page)

Summary of data for narL from multiple microarray studies


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

Resource Name Resource Type Description Source Notes

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Notes

Accessions Related to narL Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10643

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0637

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1221

EcoGene

EcoGene:EG10643

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000636

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004097

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

Arabidopsis thaliana

  • AT5G62920 (score: 1.000; bootstrap: 100%)
  • AT3G48100 (score: 0.735)
  • AT2G41310 (score: 0.379)
  • AT3G57040 (score: 0.369)
  • AT2G40670 (score: 0.346)
  • AT3G56380 (score: 0.337)
  • AT2G46790 (score: 0.065)
  • AT2G07440 (score: 0.061)

From Inparanoid:20070104

Shigella flexneri

NARL

From SHIGELLACYC

E. coli O157

NARL

From ECOO157CYC


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)

PF00196 Bacterial regulatory proteins, luxR family

Superfamily (EcoliWiki Page)

SUPERFAMILY:46894

Superfamily (EcoliWiki Page)

SUPERFAMILY:52172

Panther (EcoliWiki Page)

PTHR26402:SF164

Pfam (EcoliWiki Page)

PF00072 Response regulator receiver domain

EcoCyc

EcoCyc:EG10643

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10643

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000636

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0637

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004097

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 2.11 2.12 2.13 2.14 2.15 2.16 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. 3.0 3.1 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).

Categories

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