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sgrR:On One Page

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Standard Name

sgrR

Gene Synonym(s)

ECK0070, b0069, JW0068, yabN[1]

Product Desc.

SgrR transcriptional regulator[2][3]

Transcriptional activator of sgrS sRNA; sgrS destabilizes ptsG mRNA[4]

Product Synonyms(s)

DNA-binding transcriptional regulator[1], B0069[2][1], YabN[2][1], SgrR[2][1]

Function from GO

Molecular Function

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): thiQ[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(sgrR)    Textpresso(sgrR)

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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

sgrR

Mnemonic

SuGar transport-Related sRNA Regulator

Synonyms

ECK0070, b0069, JW0068, yabN[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

1.63 minutes 

MG1655: 77299..75644
gbrowse_img.php?coord=75644..77299&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 78448..80103
gbrowse_img.php?coord=78448..80103&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 77299..75644
gbrowse_img.php?coord=75644..77299&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

BW2952

NC_012759: 75643..77298
gbrowse_img.php?coord=75643..77298&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

yabN::Tn5KAN

PMID:12519969

ASAP

At position 727 in Minus orientation, does not contain plasmid pKD46.
ASAP strain name: FB20009

yabN::Tn5KAN

PMID:12519969

ASAP

At position 727 in Minus orientation, contains plasmid pKD46.
ASAP strain name: FB20010

ΔsgrR (Keio:JW0068)

deletion

deletion

PMID:16738554

Shigen

ΔsgrR3::FLKP2(lacZ,kan,Pla

PMID:12142427

CGSC:83734

ΔsgrR4

PMID:12142427

CGSC:83736


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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

JW0068

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCCATCTGCTCGTCTGCAACA

Primer 2:CCTGGATCCGGTGGCGCAAACCA

carB96::Tn10

Linked marker

CAG12093 = CGSC7322[5]

est. P1 cotransduction: 15% [6]
Synonyms:car-96::Tn10

leuO3051::Tn10

Linked marker

CAG12095 = CGSC7324[5]

est. P1 cotransduction: 77% [6]
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).

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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:EG12094

EchoBASE (EcoliWiki Page)

EchoBASE:EB2018

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0069

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0085

EcoGene (EcoliWiki Page)

EcoGene:EG12094

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:YABN

ASAP (EcoliWikiPage)

ASAP:ABE-0000251


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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

SgrR

Synonyms

DNA-binding transcriptional regulator[1], B0069[2][1], YabN[2][1], SgrR[2][1]

Product description

SgrR transcriptional regulator[2][3]

Transcriptional activator of sgrS sRNA; sgrS destabilizes ptsG mRNA[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:0006810

transport

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000914

P

Seeded from EcoCyc [7]

complete

GO:0006355

regulation of transcription, DNA-dependent

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0805

P

Seeded from EcoCyc [7]

complete

GO:0006350

transcription

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

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:0005215

transporter activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000914

F

Seeded from EcoCyc [7]

complete

GO:0016563

transcription activator activity

GO_REF:0000020
PMID:15522088

IMP: Inferred from Mutant Phenotype

HAMAP:MF_01449

F

Seeded from EcoCyc [7]

complete

GO:0016564

transcription repressor activity

GO_REF:0000020
PMID:15522088

IMP: Inferred from Mutant Phenotype

HAMAP:MF_01449

F

Seeded from EcoCyc [7]

complete

GO:0045449

regulation of transcription

GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01449

P

Seeded from EcoCyc [7]

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

fumB

PMID:16606699

Experiment(s):EBI-1135494

Protein

groL

PMID:16606699

Experiment(s):EBI-1135494

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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 

MPSARLQQQF IRLWQCCEGK SQDTTLNELA ALLSCSRRHM RTLLNTMQDR GWLTWEAEVG
RGKRSRLTFL YTGLALQQQR AEDLLEQDRI DQLVQLVGDK ATVRQMLVSH LGRSFRQGRH
ILRVLYYRPL RNLLPGSALR RSETHIARQI FSSLTRINEE NGELEADIAH HWQQISPLHW
RFFLRPGVHF HHGRELEMDD VIASLKRINT LPLYSHIADI VSPTPWTLDI HLTQPDRWLP
LLLGQVPAMI LPREWETLSN FASHPIGTGP YAVIRNSTNQ LKIQAFDDFF GYRALIDEVN
VWVLPEIADE PAGGLMLKGP QGEEKEIESR LEEGCYYLLF DSRTHRGANQ QVRDWVSYVL
SPTNLVYFAE EQYQQLWFPA YGLLPRWHHA RTIKSEKPAG LESLTLTFYQ DHSEHRVIAG
IMQQILASHQ VTLKIKEIDY DQWHTGEIES DIWLNSANFT LPLDFSVFAH LCEVPLLQHC
IPIDWQADAA RWRNGEMNLA NWCQQLVASK AMVPLLHHWL IIQGQRSMRG LRMNTLGWFD
FKSAWFAPPD P
Length

551

Mol. Wt

63.976 kDa

pI

7.0 (calculated)

Extinction coefficient

130,860 - 131,735 (calc based on 14 Y, 20 W, and 7 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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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:EG12094-MONOMER

UniProt (EcoliWiki Page)

UniProt:P33595

PFAM (EcoliWiki Page)

PFAM:PF00496

RefSeq (EcoliWiki Page)

RefSeq:NP_414611


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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)

thiQ

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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=77279..77319&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:b0069 (EcoliWiki Page)

NCBI GEO profiles for sgrR

microarray

GenExpDB:b0069 (EcoliWiki Page)

Summary of data for sgrR 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 (77211..77657) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ16; Well:D6[8]

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Notes

Accessions Related to sgrR Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG12094

EchoBASE (EcoliWiki Page)

EchoBASE:EB2018

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0069

EcoGene (EcoliWiki Page)

EcoGene:EG12094


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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

YABN

From SHIGELLACYC

E. coli O157

YABN

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF00496


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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. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 2.8 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 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 7.5 7.6 7.7 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ 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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