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emrY:On One Page

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Standard Name

emrY

Gene Synonym(s)

ECK2363, b2367, JW2364[1]

Product Desc.

EmrY putative multidrug MFS transporter[2][3];

Component of EmrKY-TolC Putative Drug Efflux Transport System[3]

EmrKY-TolC multidrug resistance efflux pump; overexpression resistance to deoxycholate; no mutant phenotype[4]

Product Synonyms(s)

predicted multidrug efflux system[1], B2367[2][1], EmrY[2][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s): emrKY[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(emrY)    Textpresso(emrY)

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Notes

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EvgAS regulon. Major Facilitator Superfamily (MFS).[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

emrY

Mnemonic

Efflux-multidrug resistance

Synonyms

ECK2363, b2367, JW2364[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

53.42 minutes 

MG1655: 2480198..2478660
gbrowse_img.php?coord=2478660..2480198&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 2416403..2414865
gbrowse_img.php?coord=2414865..2416403&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 2487622..2486084
gbrowse_img.php?coord=2486084..2487622&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 2571963..2570425
gbrowse_img.php?coord=2570425..2571963&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 2364465..2366003
gbrowse_img.php?coord=2364465..2366003&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

ΔemrY (Keio:JW2364)

deletion

deletion

PMID:16738554

Shigen
CGSC9888[5]

emrY

PMID:12519969

ASAP

At position 956 in Plus orientation, contains plasmid pKD46.
ASAP strain name: FB20778

ΔemrY776::kan

PMID:16738554

CGSC:100708

Strain BW2952

T763A

L249Q

Nonsynonomous mutation

PMID:19376874

This is a strain-specific difference in BW2952 relative to E. coli K-12 MG1655.

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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

JW2364

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCAATCACTAAATCAACTCC

Primer 2:CCgCCAACGCCTTTCGCTGTAAA

zfb-223::Tn10

Linked marker

CAG18484 = CGSC7406[5]

est. P1 cotransduction: % [6]
Synonyms:zej-223::Tn10

zfd-1::Tn10

Linked marker

CAG18467 = CGSC7408[5]

est. P1 cotransduction: 64% [6]
Synonyms:zfb-1::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:EG13283

EchoBASE (EcoliWiki Page)

EchoBASE:EB3068

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2367

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C2902

EcoGene (EcoliWiki Page)

EcoGene:EG13283

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:EMRY

ASAP (EcoliWikiPage)

ASAP:ABE-0007806


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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

EmrY

Synonyms

predicted multidrug efflux system[1], B2367[2][1], EmrY[2][1]

Product description

EmrY putative multidrug MFS transporter[2][3];

Component of EmrKY-TolC Putative Drug Efflux Transport System[3]

EmrKY-TolC multidrug resistance efflux pump; overexpression resistance to deoxycholate; no mutant phenotype[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:0016021

integral to membrane

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR004638
InterPro:IPR007114
SP_KW:KW-0812

C

Seeded from EcoCyc [7]

complete

GO:0016020

membrane

GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0397
SP_KW:KW-0472

C

Seeded from EcoCyc 12.5 [8]

complete

GO:0006810

transport

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR004638
InterPro:IPR007114
SP_KW:KW-0813

P

Seeded from EcoCyc [7]

complete

GO:0005215

transporter activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007114

F

Seeded from EcoCyc [7]

complete

GO:0042493

response to drug

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0005886

plasma membrane

GO_REF:0000004
GO_REF:0000004
GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997
SP_KW:KW-1003
SP_SL:SL-0037

C

Seeded from EcoCyc [7]

complete

GO:0015292

uniporter 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

Subunits of EmrKY-TolC Putative Drug Efflux Transport System

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.

CompartmentDescriptionEvidenceSourceNotes

plasma membrane

C-terminus localized in the cytoplasm with 14 predicted transmembrane domains

Daley et al. (2005) [9]

plasma membrane

From EcoCyc[3]


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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 

MAITKSTPAP LTGGTLWCVT IALSLATFMQ MLDSTISNVA IPTISGFLGA STDEGTWVIT
SFGVANAIAI PVTGRLAQRI GELRLFLLSV TFFSLSSLMC SLSTNLDVLI FFRVVQGLMA
GPLIPLSQSL LLRNYPPEKR TFALALWSMT VIIAPICGPI LGGYICDNFS WGWIFLINVP
MGIIVLTLCL TLLKGRETET SPVKMNLPGL TLLVLGVGGL QIMLDKGRDL DWFNSSTIII
LTVVSVISLI SLVIWESTSE NPILDLSLFK SRNFTIGIVS ITCAYLFYSG AIVLMPQLLQ
ETMGYNAIWA GLAYAPIGIM PLLISPLIGR YGNKIDMRLL VTFSFLMYAV CYYWRSVTFM
PTIDFTGIIL PQFFQGFAVA CFFLPLTTIS FSGLPDNKFA NASSMSNFFR TLSGSVGTSL
TMTLWGRRES LHHSQLTATI DQFNPVFNSS SQIMDKYYGS LSGVLNEINN EITQQSLSIS
ANEIFRMAAI AFILLTVLVW FAKPPFTAKG VG
Length

512

Mol. Wt

56.004 kDa

pI

8.0 (calculated)

Extinction coefficient

78,380 - 79,380 (calc based on 12 Y, 11 W, and 8 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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tmhmm.php?gene=emrY&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
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:EMRY-MONOMER

UniProt (EcoliWiki Page)

UniProt:P52600

PFAM (EcoliWiki Page)

PFAM:PF07690

RefSeq (EcoliWiki Page)

RefSeq:NP_416868


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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)

emrKY

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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=2480178..2480218&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein+flip&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:b2367 (EcoliWiki Page)

NCBI GEO profiles for emrY

microarray

GenExpDB:b2367 (EcoliWiki Page)

Summary of data for emrY 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 emrY Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG13283

EchoBASE (EcoliWiki Page)

EchoBASE:EB3068

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2367

EcoGene (EcoliWiki Page)

EcoGene:EG13283


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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

Anopheles gambiae

  • ENSANGP00000018326 (score: 1.000; bootstrap: 100%)
  • ENSANGP00000020909 (score: 0.369)
  • ENSANGP00000017425 (score: 0.254)
  • ENSANGP00000022354 (score: 0.208)
  • ENSANGP00000003717 (score: 0.162)
  • ENSANGP00000018243 (score: 0.161)
  • ENSANGP00000024634 (score: 0.137)
  • ENSANGP00000022243 (score: 0.101)
  • ENSANGP00000011833 (score: 0.081)
  • ENSANGP00000009351 (score: 0.070)
  • ENSANGP00000021350 (score: 0.061)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0191430 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YKR105C (score: 1.000; bootstrap: 77%)
  • YCL069W (score: 0.764)
  • YGR224W (score: 0.428)
  • YPR198W (score: 0.305)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPBC16A37c (score: 1.000; bootstrap: 92%)
  • SPAC3H16c (score: 0.323)
  • SPAC13992 (score: 0.314)
  • SPBC3E76c (score: 0.057)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000051762 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

EMRY

From SHIGELLACYC

E. coli O157

EMRY

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF07690


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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 1.2 1.3 1.4 1.5 1.6 1.7 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 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 3.3 3.4 3.5 3.6 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 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
  9. ↑ Daley DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308: 1321-3 PubMed EcoliWiki page

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