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lsrA:On One Page

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Standard Name

lsrA

Gene Synonym(s)

ego, ECK1506, b1513, JW1506, ydeX[1][2]

Product Desc.

LsrA[2][3];

Component of LsrA/LsrC/LsrD/LsrB ABC transporter[2][3]

Autoinducer-2 (AI-2) uptake; essential for aerobic growth; upregulated in biofilms[4]

Product Synonyms(s)

fused AI2 transporter subunits of ABC superfamily: ATP-binding components[1], B1513[2][1], YdeX[2][1], Ego[2][1]

Function from GO

Molecular Function

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): lsrACDBFG[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(lsrA)    Textpresso(lsrA)

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Notes

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LsrA is paralogous to ribose transport ATPase RbsA. LsrA is in an operon regulated by LsrR and LuxS, through AI-2. Biofilm microarray result was validated with RT-PCR. CRP regulon.[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

lsrA

Mnemonic

luxS regulated

Synonyms

ego, ECK1506, b1513, JW1506, ydeX[1][2]

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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

34.47 minutes 

MG1655: 1599514..1601049
gbrowse_img.php?coord=1599514..1601049&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 1603204..1604739
gbrowse_img.php?coord=1603204..1604739&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 1689139..1690674
gbrowse_img.php?coord=1689139..1690674&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 1491573..1493108
gbrowse_img.php?coord=1491573..1493108&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

ΔlsrA734::kan

PMID:16738554

CGSC:106228


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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

Plasmid clone

Shigen

PMID:16769691

Status:

Primer 1:

Primer 2:

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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:G6800

EchoBASE (EcoliWiki Page)

EchoBASE:EB3567

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1513

EcoGene (EcoliWiki Page)

EcoGene:EG13806

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:Z2192

ASAP (EcoliWikiPage)

ASAP:ABE-0005056


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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

Ego

Synonyms

fused AI2 transporter subunits of ABC superfamily: ATP-binding components[1], B1513[2][1], YdeX[2][1], Ego[2][1]

Product description

LsrA[2][3];

Component of LsrA/LsrC/LsrD/LsrB ABC transporter[2][3]

Autoinducer-2 (AI-2) uptake; essential for aerobic growth; upregulated in biofilms[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:0017111

nucleoside-triphosphatase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003593

F

Seeded from EcoCyc [5]

complete

GO:0016887

ATPase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003439

F

Seeded from EcoCyc 12.5 [6]

complete

GO:0006810

transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc [5]

complete

GO:0005524

ATP binding

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR003439
SP_KW:KW-0067

F

Seeded from EcoCyc 12.5 [6]

complete

GO:0000166

nucleotide binding

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR003593
SP_KW:KW-0547

F

Seeded from EcoCyc [5]

complete

GO:0005515

protein binding

PMID:16606699

IPI: Inferred from Physical Interaction

UniProtKB:P0A6F5

F

Seeded from EcoCyc [5]

complete

GO:0005737

cytoplasm

C

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 [5]

complete

GO:0016020

membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc [5]

complete

GO:0016787

hydrolase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc [5]

complete

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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 LsrA/LsrC/LsrD/LsrB ABC transporter

could be indirect

Protein

groL

PMID:16606699

Experiment(s):EBI-1140026

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Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes

cytoplasm

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 

MQTSDTRALP LLCARSVYKQ YSGVNVLKGI DFTLHQGEVH ALLGGNGAGK STLMKIIAGI
TPADSGTLEI EGNNYVRLTP VHAHQLGIYL VPQEPLLFPS LSIKENILFG LAKKQLSMQK
MKNLLAALGC QFDLHSLAGS LDVADRQMVE ILRGLMRDSR ILILDEPTAS LTPAETERLF
SRLQELLATG VGIVFISHKL PEIRQIADRI SVMRDGTIAL SGKTSELSTD DIIQAITPAV
REKSLSASQK LWLELPGNRP QHAAGTPVLT LENLTGEGFR NVSLTLNAGE ILGLAGLVGA
GRTELAETLY GLRTLRGGRI MLNGKEINKL STGERLLRGL VYLPEDRQSS GLNLDASLAW
NVCALTHNLR GFWAKTAKDN ATLERYRRAL NIKFNQPEQA ARTLSGGNQQ KILIAKCLEA
SPQVLIVDEP TRGVDVSARN DIYQLLRSIA AQNVAVLLIS SDLEEIELMA DRVYVMHQGE
ITHSALTERD INVETIMRVA FGDSQRQEAS C
Length

511

Mol. Wt

55.823 kDa

pI

7.3 (calculated)

Extinction coefficient

29,910 - 30,535 (calc based on 9 Y, 3 W, and 5 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:YDEX-MONOMER

UniProt (EcoliWiki Page)

UniProt:P77257

PFAM (EcoliWiki Page)

PFAM:PF00005

RefSeq (EcoliWiki Page)

RefSeq:NP_416030


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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)

lsrACDBFG

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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=1599494..1599534&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:b1513 (EcoliWiki Page)

NCBI GEO profiles for lsrA

microarray

GenExpDB:b1513 (EcoliWiki Page)

Summary of data for lsrA 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

GFP Fusion

Intergenic region (1599170..1599538) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ17; Well:C11[7]

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Notes

Accessions Related to lsrA Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:G6800

EchoBASE (EcoliWiki Page)

EchoBASE:EB3567

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1513

EcoGene (EcoliWiki Page)

EcoGene:EG13806


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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

Drosophila pseudoobscura

  • YP_026286 (score: 0.230)
  • GA14368-PA (score: 1.000; bootstrap: 87%)
  • GA13367-PA (score: 0.116)

From Inparanoid:20070104

Shigella flexneri

S1709

From SHIGELLACYC

E. coli O157

Z2192

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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

DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF00005


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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 1.8 1.9 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 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 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 5.3 5.4 5.5 5.6 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  6. ↑ 6.0 6.1 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  7. ↑ Zaslaver A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat Methods 3: 623-8 PubMed EcoliWiki page

Categories

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