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nhaR:On One Page

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See Help:Quickview for help with entering information in the Quickview table.

Standard Name

nhaR

Gene Synonym(s)

ECK0021, b0020, JW0019, yaaB, antO[1]

Product Desc.

NhaR transcriptional activator[2][3]

Positive regulator of nhaA, Na(+)-dependent[4]

Product Synonyms(s)

DNA-binding transcriptional activator[1], B0020[2][1], YaaB[2][1], AntO[2][1], NhaR[2][1], transcriptional activator of nhaA[2][1]

Function from GO

Molecular Function

Knock-Out Phenotype
Regulation/Expression

transcription unit(s):

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(nhaR)    Textpresso(nhaR)

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Notes

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nhaR lacks an obvious promoter and may be expressed via nhaA readthrough. LysR family.[4]



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

nhaR

Mnemonic

Na+/H+ antiporter

Synonyms

ECK0021, b0020, JW0019, yaaB, antO[1]

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Notes

Location(s) and DNA Sequence

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

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

0.4 minutes 

MG1655: 18715..19620
gbrowse_img.php?coord=18715..19620&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 18714..19619
gbrowse_img.php?coord=18714..19619&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 18715..19620
gbrowse_img.php?coord=18715..19620&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 18715..19620
gbrowse_img.php?coord=18715..19620&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 18715..19620
gbrowse_img.php?coord=18715..19620&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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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 typeLocationDescription
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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.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

ΔnhaR (Keio:JW0019)

deletion

deletion

PMID:16738554

Shigen
CGSC8345[5]

nhaRE134A

E134A

In nhaR1; increases the transcription of nhaA

seeded from UniProt:P0A9G2

ΔnhaR738::kan

PMID:16738554

CGSC:102064


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Notes

Genetic Resources

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

ResourceResource TypeSourceNotes/Reference

JW0019

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAGCATGTCTCATATCAATTA

Primer 2:CCACGCACCGCTGGACTAAAAAG

thrA34::Tn10

Linked marker

CAG18442 = CGSC7320[5]

est. P1 cotransduction: 51% [6]
Synonyms:thr-34::Tn10

carB96::Tn10

Linked marker

CAG12093 = CGSC7322[5]

est. P1 cotransduction: 62% [6]
Synonyms:car-96::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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11078

EchoBASE (EcoliWiki Page)

EchoBASE:EB1070

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0020

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0025

EcoGene (EcoliWiki Page)

EcoGene:EG11078

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:NHAR

CGSC (EcoliWiki Page)

CGSC:30281

ASAP (EcoliWikiPage)

ASAP:ABE-0000072


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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

NhaR

Synonyms

DNA-binding transcriptional activator[1], B0020[2][1], YaaB[2][1], AntO[2][1], NhaR[2][1], transcriptional activator of nhaA[2][1]

Product description

NhaR transcriptional activator[2][3]

Positive regulator of nhaA, Na(+)-dependent[4]

EC number (for enzymes)


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Notes

Function

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

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0005515

protein binding

PMID:16606699

IPI: Inferred from Physical Interaction

UniProtKB:P0A6F5

F

Seeded from EcoCyc [7]

complete

GO:0003677

DNA binding

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc [7]

complete

GO:0003700

transcription factor activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000847

F

Seeded from EcoCyc [7]

complete

GO:0005737

cytoplasm

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc 12.5 [8]

complete

GO:0006350

transcription

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc [7]

complete

GO:0006355

regulation of transcription, DNA-dependent

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR000847
SP_KW:KW-0805

P

Seeded from EcoCyc [7]

complete

GO:0016563

transcription activator activity

F

Seeded from EcoCyc 11.1[3].

required fields missing

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

Partner TypePartnerNotesReferencesEvidence

Protein

groL

PMID:16606699

Experiment(s):EBI-1135324

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Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes
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Notes

Structure and Physical Properties

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

Sequence

at EcoCyc 

MSMSHINYNH LYYFWHVYKE GSVVGAAEAL YLTPQTITGQ IRALEERLQG KLFKRKGRGL
EPSELGELVY RYADKMFTLS QEMLDIVNYR KESNLLFDVG VADALSKRLV SSVLNAAVVE
GEPIHLRCFE STHEMLLEQL SQHKLDMIIS DCPIDSTQQE GLFSVRIGEC GVSFWCTNPP
PEKPFPACLE ERRLLIPGRR SMLGRKLLNW FNSQGLNVEI LGEFDDAALM KAFGAMHNAI
FVAPTLYAYD FYADKTVVEI GRVENVMEEY HAIFAERMIQ HPAVQRICNT DYSALFSPAV R
Length

301

Mol. Wt

34.284 kDa

pI

5.9 (calculated)

Extinction coefficient

35,870 - 36,620 (calc based on 13 Y, 3 W, and 6 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.

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

Structures
Models

View models at:

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Structure figures

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 typeSourceNotes/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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:PD00474

UniProt (EcoliWiki Page)

UniProt:P0A9G2

RefSeq (EcoliWiki Page)

RefSeq:NP_414561


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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

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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Notes

Transcription and Transcriptional Regulation

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

Transcription unit(s)
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Figure courtesy of RegulonDB

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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gbrowse_img.php?coord=18695..18735&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein&width=400&figure=Nterm&.png
This picture shows the sequence around the N-terminus.

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

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

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

TypeReferenceNotes

microarray

GEO Profiles:b0020 (EcoliWiki Page)

NCBI GEO profiles for nhaR

microarray

GenExpDB:b0020 (EcoliWiki Page)

Summary of data for nhaR 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 NameResource TypeDescriptionSourceNotes
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Notes

Accessions Related to nhaR Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11078

EchoBASE (EcoliWiki Page)

EchoBASE:EB1070

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0020

EcoGene (EcoliWiki Page)

EcoGene:EG11078


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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.

OrganismHomologs (Statistics)Comments

Shigella flexneri

NHAR

From SHIGELLACYC

E. coli O157

NHAR

From ECOO157CYC

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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. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 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 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 4.2 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. ↑ 7.0 7.1 7.2 7.3 7.4 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7

Categories

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