rpoS:On One Page

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

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Standard Name

rpoS

Gene Synonym(s)

ECK2736, b2741, JW5437, abrD, appR, dpeB, katF, nur, csi2, otsX, sigS[1], sigS

Product Desc.

sigma S factor[2]; RNA polymerase, sigma S (sigma 38) factor[3];

Component of RNA polymerase sigma 38[2][3]

RNA polymerase subunit, stress and stationary phase sigma S; Sigma38[4]

Product Synonyms(s)

sigma S (sigma 38) factor[1], sigmaS, B2741[2][1], OtsX[2][1], SigS[2][1], Nur[2][1], KatF[2][1], DpeB[2][1], AppR[2][1], AbrD[2][1], RpoS[2][1], sigma 38 factor[2][1], sigma S factor[3][1] , abrD, appR, csi2, dpeB, ECK2736, JW5437, katF, nur, otsX, sigS, b2741

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): rpoS[2], nlpD-rpoS[2]

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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Polyamine modulon.[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

rpoS

Mnemonic

RNA polymerase subunit

Synonyms

ECK2736, b2741, JW5437, abrD, appR, dpeB, katF, nur, csi2, otsX, sigS[1], sigS

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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

61.74 minutes 

MG1655: 2865573..2864581
<gbrowseImage> name=NC_000913:2864581..2865573 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2762412..2761420
<gbrowseImage> name=NC_012967:2761420..2762412 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2750393..2751385
<gbrowseImage> name=NC_012759:2750393..2751385 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2866090..2865215
<gbrowseImage> name=NC_007779:2865215..2866090 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2958115..2957123
<gbrowseImage> name=NC_010473:2957123..2958115 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

rpoS(del) (Keio:JW5437)

deletion

deletion

PMID:16738554

Shigen

CGSC11387[5]

rpoS::Tn5KAN-I-SceI (FB20919)

Insertion at nt 397 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20919

contains pKD46

rpoS(del)::kan

deletion

Biolog:respiration

unable to respire a-Hydroxybutyrate

PMID:16095938

rpoS(del)::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938

rpoS819

Growth Phenotype

PMID:14645263

pH dependent GASP phenotype

rpoS1003

CGSC:19383

rpoS396(Am)

PMID:9209028

CGSC:43666

amber (UAG) mutation

rpoS(del)1271

CGSC:80512

rpoS(del)1270

CGSC:89820

rpoS(del)746::kan

PMID:16738554

CGSC:102794

rpoS(del)

Sensitivity to

increased sensitivity to ozone (6 ug/ml in saline)

PMID:21457413

data in Table 1

rpoS+

overexpression

an increase in expression of rpoS after 15 min of heat stress in biofilm mode and planktonic phase, figure 7.

PMID:21630090

rpoS

expression

Variation in the pH change induces the expression of rpoS up to 3.5-5.5 fold increase under biofilm mode of growth, figure 6.

PMID:21630090

rpoS(del)

deletion

deletion

Auxotrophies

PoxB activity was almost completely abolished in rpoS null mutant, fig 1, 3.

PMID:8022274

rpoS359::Tn10

Auxotrophies

Inactivation of the rpoS gene reduced the SOS induction of the sbmC gene, figure 1A.

PMID:11689018

rpoS746(del)::FRTKanFRT

deletion

Catalase activity

Decrease in Catalase Activity

PMID:23224554

Parent Strain: SMR10582 Experimental Strain: SMR12261

The mutation caused a decrease in catalase activity. See table S8 for experimental data.

rpoS746(del)::FRTKanFRT

deletion

Sigma E Activity

Decrease in sigma E Activity

PMID:23224554

Parent Strain: SMR10582 Experimental Strain: SMR12261

The mutation caused a decrease in Sigma E activity. See table S8 for full experimental data.

SMR4562 yiaG-yfp FRTcatFRT rpoS746(del)::FRTKanFRT

SigmaS activity

Decrease in SigmaS activity

PMID:23224554

Parent Strain: SMR10582 Experimental Strain: SMR12661

The mutation conferred a decrease in SigmaS activity. See Table S8 for full experimental results.

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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

JW5437

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCCGAAGAGGAACTGTTATC

Primer 2:CCtTCGCGGAACAGCGCTTCGAT

25D2

Kohara Phage

Genobase

PMID:3038334

1B5

Kohara Phage

Genobase

PMID:3038334

srlD3131::Tn10

Linked marker

CAG18642 = CGSC7423[5]

est. P1 cotransduction: 19% [6]
Synonyms:zfh-3131::Tn10, zfi-3131::Tn10

cysI95::Tn10

Linked marker

CAG12173 = CGSC7425[5]

est. P1 cotransduction: 46% [6]
Synonyms:cysC95::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:EG10510

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10510

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000503

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947210

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0505

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009001

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

RpoS

Synonyms

sigma S (sigma 38) factor[1], sigmaS, B2741[2][1], OtsX[2][1], SigS[2][1], Nur[2][1], KatF[2][1], DpeB[2][1], AppR[2][1], AbrD[2][1], RpoS[2][1], sigma 38 factor[2][1], sigma S factor[3][1] , abrD, appR, csi2, dpeB, ECK2736, JW5437, katF, nur, otsX, sigS, b2741

Product description

sigma S factor[2]; RNA polymerase, sigma S (sigma 38) factor[3];

Component of RNA polymerase sigma 38[2][3]

RNA polymerase subunit, stress and stationary phase sigma S; Sigma38[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:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000943

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007624

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007627

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007630

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009042

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012761

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013324

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013325

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR014284

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:IPR000943

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007624

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007627

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007630

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009042

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012761

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013324

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013325

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR014284

F

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:0006352

transcription initiation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000943

P

Seeded from EcoCyc (v14.0)

complete

GO:0006352

transcription initiation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007624

P

Seeded from EcoCyc (v14.0)

complete

GO:0006352

transcription initiation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007627

P

Seeded from EcoCyc (v14.0)

complete

GO:0006352

transcription initiation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007630

P

Seeded from EcoCyc (v14.0)

complete

GO:0006352

transcription initiation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009042

P

Seeded from EcoCyc (v14.0)

complete

GO:0006352

transcription initiation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012761

P

Seeded from EcoCyc (v14.0)

complete

GO:0006352

transcription initiation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013324

P

Seeded from EcoCyc (v14.0)

complete

GO:0006352

transcription initiation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013325

P

Seeded from EcoCyc (v14.0)

complete

GO:0006352

transcription initiation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR014284

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:IPR000943

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:IPR007624

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:IPR007627

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:IPR007630

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:IPR009042

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:IPR012761

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:IPR013324

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:IPR013325

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:IPR014284

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0731

P

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000943

F

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007624

F

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007627

F

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007630

F

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009042

F

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012761

F

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013324

F

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR013325

F

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR014284

F

Seeded from EcoCyc (v14.0)

complete

GO:0016987

sigma factor activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0731

F

Seeded from EcoCyc (v14.0)

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 Type Partner Notes References Evidence

Protein

Subunits of RNA polymerase sigma 38

could be indirect

Protein

manX

PMID:15690043

Experiment(s):EBI-879117

Protein

rplA

PMID:15690043

Experiment(s):EBI-879117

Protein

rpoA

PMID:15690043

Experiment(s):EBI-879117

Protein

rpoB

PMID:15690043

Experiment(s):EBI-879117, EBI-883170

Protein

rpoC

PMID:15690043

Experiment(s):EBI-879117

Protein

rpsB

PMID:15690043

Experiment(s):EBI-879117

Protein

tufA

PMID:15690043

Experiment(s):EBI-879117

Protein

manX

PMID:19402753

MALDI(Z-score):36.822025

Protein

tufB

PMID:19402753

MALDI(Z-score):20.630455

RNA

OxyS RNA

OxyS RNA represses translation of rpoS by encoding alternate sigma factor

PMID:11804582

Protein

Hfq

Hfq activates rpoS mRNA translation

PMID:11804582

RNA

DsrA

DsrA increases RpoS expression by increasing translation efficiency or mRNA stability (this increase occurs most at low temperatures)

PMID:14594834 PMID:8670904

DsrA stimulates RpoS translation by pairing with mRNA upstream of RpoS translation start and DsrA is more abundant at low growth temperatures

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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

cytoplasm

From EcoCyc[3]


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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 

MSQNTLKVHD LNEDAEFDEN GVEVFDEKAL VEQEPSDNDL AEEELLSQGA TQRVLDATQL
YLGEIGYSPL LTAEEEVYFA RRALRGDVAS RRRMIESNLR LVVKIARRYG NRGLALLDLI
EEGNLGLIRA VEKFDPERGF RFSTYATWWI RQTIERAIMN QTRTIRLPIH IVKELNVYLR
TARELSHKLD HEPSAEEIAE QLDKPVDDVS RMLRLNERIT SVDTPLGGDS EKALLDILAD
EKENGPEDTT QDDDMKQSIV KWLFELNAKQ REVLARRFGL LGYEAATLED VGREIGLTRE
RVRQIQVEGL RRLREILQTQ GLNIEALFRE
Length

330

Mol. Wt

37.972 kDa

pI

4.7 (calculated)

Extinction coefficient

26,930 (calc based on 7 Y, 3 W, and 0 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.

Type Residues Description Notes References

Domain

94..164

PF04542 Sigma-70 region 2

PMID:19920124

Domain

262..315

PF04545 Sigma-70, region 4

PMID:19920124

Domain

55..91

PF00140 Sigma-70 factor, region 1.2

PMID:19920124

Domain

173..250

PF04539 Sigma-70 region 3

PMID:19920124

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<motif_map/>

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

Structures

<beststructure> gene=rpoS 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:16130648

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947210

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009001

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P13445

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10510

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10510

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947210

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000503

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0505

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 MG1655

2254

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

10222

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

2236

molecules/cell/generation

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

Ribosome Profiling

PMID: 24766808

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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)

rpoS

nlpD-rpoS

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Figure courtesy of RegulonDB

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Notes

Note: This image from RegulonDB is wrong. nlpD should begin just downstream of the nlpDp1 and nlpDp2 promoters. See Figure 2 of Hengge-Aronis (2002)[7] ; see also the rpoS EcoCyc entry.

Synthesis of RpoS is increased at low temperatures (below 37 C). [8][9]

Deletion of rpoS will almost completely abolish poxB expression.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:2865553..2865593 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
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b2741 (EcoliWiki Page)

NCBI GEO profiles for rpoS

microarray

GenExpDB:b2741 (EcoliWiki Page)

Summary of data for rpoS 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 Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (2865488..2865716) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ20; Well:F12[10]

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Notes

Accessions Related to rpoS Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10510

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0505

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2741

EcoGene

EcoGene:EG10510

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000503

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009001

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Evolution

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{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

  • AT2G36990 (score: 1.000; bootstrap: 76%)
  • AT1G08540 (score: 0.108)

From Inparanoid:20070104

Oryza gramene

  • Q53JE7 (score: 1.000; bootstrap: 98%)
  • Q53KH8 (score: 1.000; bootstrap: 98%)
  • Q7XXT0 (score: 0.998)
  • Q9ZPL2 (score: 0.696)
  • Q53KH7 (score: 0.568)
  • Q84Q84 (score: 0.471)
  • Q9ZPL1 (score: 0.400)
  • Q84LK8 (score: 0.059)
  • Q8RWR8 (score: 0.052)
  • Q9ZPL0 (score: 0.050)
  • Q6L565 (score: 0.050)
  • Q6I5E7 (score: 0.050)

From Inparanoid:20070104

E. coli O157

RPOS

From ECOO157CYC

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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)

PF04542 Sigma-70 region 2

Pfam (EcoliWiki Page)

PF04545 Sigma-70, region 4

Superfamily (EcoliWiki Page)

SUPERFAMILY:88659

Superfamily (EcoliWiki Page)

SUPERFAMILY:88659

Superfamily (EcoliWiki Page)

SUPERFAMILY:88946

Pfam (EcoliWiki Page)

PF00140 Sigma-70 factor, region 1.2

Pfam (EcoliWiki Page)

PF04539 Sigma-70 region 3

EcoCyc

EcoCyc:EG10510

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10510

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000503

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0505

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009001

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. ↑ 1.00 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 1.14 1.15 1.16 1.17 1.18 1.19 1.20 1.21 1.22 1.23 1.24 1.25 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 2.17 2.18 2.19 2.20 2.21 2.22 2.23 2.24 2.25 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. ↑ Hengge-Aronis, R (2002) Signal transduction and regulatory mechanisms involved in control of the sigma(S) (RpoS) subunit of RNA polymerase. Microbiol. Mol. Biol. Rev. 66 373-95, table of contents PubMed
  8. ↑ Repoila, F & Gottesman, S (2003) Temperature sensing by the dsrA promoter. J. Bacteriol. 185 6609-14 PubMed
  9. ↑ Sledjeski, DD et al. (1996) The small RNA, DsrA, is essential for the low temperature expression of RpoS during exponential growth in Escherichia coli. EMBO J. 15 3993-4000 PubMed
  10. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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