rstA: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

rstA

Gene Synonym(s)

ECK1603, b1608, JW1600, urpT[1], urpT

Product Desc.

RstA- transcriptional regulator[2][3]

Multicopy supressor of yjeE deletion lethality; putative response regulator[4]

Product Synonyms(s)

DNA-binding response regulator in two-component regulatory system with RstB[1], UrpT[2][1], B1608[2][1],, ECK1603, JW1600, urpT, b1608

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): rstAB[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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Mg(2+) stimulon-PhoPQ regulon, EvgAS-PhoPQ cascade enhanced-expression subset.[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

rstA

Mnemonic

Regulator and sensor homologs near terminus

Synonyms

ECK1603, b1608, JW1600, urpT[1], urpT

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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

36.21 minutes 

MG1655: 1680174..1680902
<gbrowseImage> name=NC_000913:1680174..1680902 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1659345..1660073
<gbrowseImage> name=NC_012967:1659345..1660073 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1572242..1572961
<gbrowseImage> name=NC_012759:1572242..1572961 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1683864..1684592
<gbrowseImage> name=NC_007779:1683864..1684592 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1771135..1771863
<gbrowseImage> name=NC_010473:1771135..1771863 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

ΔrstA (Keio:JW1600)

deletion

deletion

PMID:16738554

Shigen
CGSC9361[5]

rstA::Tn5KAN-2 (FB20382)

Insertion at nt 389 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20382

does not contain pKD46

rstA::Tn5KAN-2 (FB20383)

Insertion at nt 389 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20383

contains pKD46

ΔrstA756::kan

PMID:16738554

CGSC:102828


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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

JW1600

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAATGTTATGAACACTATCGT

Primer 2:CCTTCCCATGCATGAGGCGCAAA

11H12

Kohara Phage

Genobase

PMID:3038334

6A3

Kohara Phage

Genobase

PMID:3038334

zdd-235::Tn10

Linked marker

CAG18461 = CGSC7378[5]

est. P1 cotransduction: % [6]
Synonyms:zdc-235::Tn10

zdi-925::Tn10

Linked marker

CAG12151 = CGSC7385[5]

est. P1 cotransduction: % [6]
Synonyms:zdh-925::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:G6864

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13190

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003453

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946199

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2982

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005370

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

RstA

Synonyms

DNA-binding response regulator in two-component regulatory system with RstB[1], UrpT[2][1], B1608[2][1],, ECK1603, JW1600, urpT, b1608

Product description

RstA- transcriptional regulator[2][3]

Multicopy supressor of yjeE deletion lethality; putative response regulator[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:0000156

two-component response regulator activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001789

F

Seeded from EcoCyc (v14.0)

complete

GO:0000156

two-component response regulator activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001867

F

Seeded from EcoCyc (v14.0)

complete

GO:0000160

two-component signal transduction system (phosphorelay)

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001789

P

Seeded from EcoCyc (v14.0)

complete

GO:0000160

two-component signal transduction system (phosphorelay)

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001867

P

Seeded from EcoCyc (v14.0)

complete

GO:0000160

two-component signal transduction system (phosphorelay)

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0902

P

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001867

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:0005737

cytoplasm

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0086

C

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:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001789

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:IPR001867

P

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

rrmA

PMID:16606699

Experiment(s):EBI-1140230

Protein

glnK

PMID:16606699

Experiment(s):EBI-1140230

Protein

hchA

PMID:16606699

Experiment(s):EBI-1140230

Protein

yfdO

PMID:16606699

Experiment(s):EBI-1140230

Protein

ymfM

PMID:16606699

Experiment(s):EBI-1140230

Protein

yhdN

PMID:16606699

Experiment(s):EBI-1140230

Protein

groL

PMID:16606699

Experiment(s):EBI-1140230

Protein

uspG

PMID:16606699

Experiment(s):EBI-1140230

Protein

prs

PMID:16606699

Experiment(s):EBI-1140230
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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 

MNVMNTIVFV EDDAEVGSLI AAYLAKHDMQ VTVEPRGDQA EETILRENPD LVLLDIMLPG
KDGMTICRDL RAKWSGPIVL LTSLDSDMNH ILALEMGACD YILKTTPPAV LLARLRLHLR
QNEQATLTKG LQETSLTPYK ALHFGTLTID PINRVVTLAN TEISLSTADF ELLWELATHA
GQIMDRDALL KNLRGVSYDG LDRSVDVAIS RLRKKLLDNA AEPYRIKTVR NKGYLFAPHA WE
Length

242

Mol. Wt

27.049 kDa

pI

5.5 (calculated)

Extinction coefficient

25,440 - 25,690 (calc based on 6 Y, 3 W, and 2 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

157..233

PF00486 Transcriptional regulatory protein, C terminal

PMID:19920124

Domain

4..113

PF00072 Response regulator receiver domain

PMID:19920124

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

Structures

<beststructure> gene=rstA 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:145698268

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946199

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005370

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P52108

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6864

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13190

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946199

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003453

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2982

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

389

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

221

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

413

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)

rstAB

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Figure courtesy of RegulonDB

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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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<protect><gbrowseImage> name=NC_000913:1680154..1680194 source=MG1655 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:b1608 (EcoliWiki Page)

NCBI GEO profiles for rstA

microarray

GenExpDB:b1608 (EcoliWiki Page)

Summary of data for rstA 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 (1679960..1680224) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ04; Well:H4[7]

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Notes

Accessions Related to rstA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:G6864

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2982

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1608

EcoGene

EcoGene:EG13190

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003453

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005370

Escherichia coli str. K-12 substr. MG1655

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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.

Organism Homologs (Statistics) Comments

Arabidopsis thaliana

  • AT4G31920 (score: 1.000; bootstrap: 100%)
  • AT2G01760 (score: 1.000; bootstrap: 100%)
  • AT2G25180 (score: 0.521)
  • AT3G16857 (score: 0.312)
  • AT4G16110 (score: 0.186)
  • AT5G49240 (score: 0.157)
  • AT1G49190 (score: 0.149)
  • AT3G62670 (score: 0.115)
  • AT4G18020 (score: 0.115)
  • AT5G07210 (score: 0.102)
  • AT2G27070 (score: 0.098)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0183884 (score: 1.000; bootstrap: 71%)
  • DDB0191388 (score: 1.000; bootstrap: 62%)
  • DDB0220512 (score: 0.106)
  • DDB0231984 (score: 0.080)
  • DDB0185194 (score: 0.077)
  • DDB0187191 (score: 0.076)
  • DDB0191306 (score: 0.075)
  • DDB0204819 (score: 0.075)
  • DDB0218392 (score: 0.066)
  • DDB0218263 (score: 0.065)
  • DDB0187593 (score: 0.065)
  • DDB0185325 (score: 0.061)
  • DDB0217795 (score: 0.060)
  • DDB0220485 (score: 0.058)
  • DDB0191407 (score: 0.058)
  • DDB0188118 (score: 0.058)
  • DDB0216671 (score: 0.056)
  • DDB0206390 (score: 0.052)

From Inparanoid:20070104

Oryza gramene

  • Q6H805 (score: 1.000; bootstrap: 63%)
  • Q94LW1 (score: 0.703)
  • Q5SML5 (score: 0.284)
  • Q6K8X6 (score: 0.277)
  • Q67W50 (score: 0.231)
  • Q948L2 (score: 0.203)
  • Q7Y0W5 (score: 0.111)
  • Q7Y0W3 (score: 0.111)
  • Q7Y0W2 (score: 0.111)
  • Q7Y0W4 (score: 0.108)
  • Q6AU68 (score: 0.069)
  • Q8H908 (score: 0.057)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YHR206W (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC8C94 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

RSTA

From SHIGELLACYC

E. coli O157

RSTA

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)

PF00486 Transcriptional regulatory protein, C terminal

Superfamily (EcoliWiki Page)

SUPERFAMILY:46894

Superfamily (EcoliWiki Page)

SUPERFAMILY:52172

Pfam (EcoliWiki Page)

PF00072 Response regulator receiver domain

EcoCyc

EcoCyc:G6864

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13190

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003453

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2982

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005370

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. ↑ 1.0 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 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. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

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