kdpE: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

kdpE

Gene Synonym(s)

ECK0682, b0694, JW5096[1], JW5096

Product Desc.

KdpE transcriptional activator[2][3]

Response regulator of kdp operon, phosphorylation state and activity determined by turgor pressure via KdpD[4]

Product Synonyms(s)

DNA-binding response regulator in two-component regulatory system with KdpD[1], B0694[2][1], KdpE-Pasp[2][1], cytoplasmic response regulator of kdp operon (transcriptional effector)[2], transcriptional regulatory protein KdpE[2], kdp operon transcriptional regulatory protein[2], , ECK0682, JW5096, b0694

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): kdpDE[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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KdpD phosphatase activity may be inhibited by turgor pressure, leading to an accumulation of phospho-KdpE and activation of kdpFABC transcription.[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

kdpE

Mnemonic

K+- DePendence

Synonyms

ECK0682, b0694, JW5096[1], JW5096

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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

15.52 minutes 

MG1655: 720956..720279
<gbrowseImage> name=NC_000913:720279..720956 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 703828..703151
<gbrowseImage> name=NC_012967:703151..703828 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 623039..623716
<gbrowseImage> name=NC_012759:623039..623716 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 722155..721478
<gbrowseImage> name=NC_007779:721478..722155 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 773548..772871
<gbrowseImage> name=NC_010473:772871..773548 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

Coding Start (SO:0000323)

MG1655

720279

Edman degradation

PMID:1630317


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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

ΔkdpE (Keio:JW5096)

deletion

deletion

PMID:16738554

Shigen
CGSC11171[5]

ΔkdpE743::kan

PMID:16738554

CGSC:101614


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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

JW5096

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCACAAACGTTCTGATTGTTGA

Primer 2:CCAAGCATAAACCGATAGCCAAT

11A10

Kohara Phage

Genobase

PMID:3038334

asnB3057::Tn10

Linked marker

CAG18433 = CGSC7349[5]

est. P1 cotransduction: 49% [6]
Synonyms:zbf-3057::Tn10 nnnThe Tn10 in CAG18433 is inserted in the asnB regulatory region, 4 bp before the start of the asnB ORF.

nadA57::Tn10

Linked marker

CAG12147 = CGSC7351[5]

est. P1 cotransduction: 5% [6]

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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:EG10517

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10517

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000510

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945302

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0512

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002366

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

KdpE

Synonyms

DNA-binding response regulator in two-component regulatory system with KdpD[1], B0694[2][1], KdpE-Pasp[2][1], cytoplasmic response regulator of kdp operon (transcriptional effector)[2], transcriptional regulatory protein KdpE[2], kdp operon transcriptional regulatory protein[2], , ECK0682, JW5096, b0694

Product description

KdpE transcriptional activator[2][3]

Response regulator of kdp operon, phosphorylation state and activity determined by turgor pressure via KdpD[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
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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 

MTNVLIVEDE QAIRRFLRTA LEGDGMRVFE AETLQRGLLE AATRKPDLII LDLGLPDGDG
IEFIRDLRQW SAVPVIVLSA RSEESDKIAA LDAGADDYLS KPFGIGELQA RLRVALRRHS
ATTAPDPLVK FSDVTVDLAA RVIHRGEEEV HLTPIEFRLL AVLLNNAGKV LTQRQLLNQV
WGPNAVEHSH YLRIYMGHLR QKLEQDPARP RHFITETGIG YRFML
Length

225

Mol. Wt

25.362 kDa

pI

6.4 (calculated)

Extinction coefficient

16,960 (calc based on 4 Y, 2 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

146..223

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=kdpE 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:16128670

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945302

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002366

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P21866

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10517

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10517

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945302

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000510

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0512

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

Ecoli K-12

5.556+/-0.161

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.003692762

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

127

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

52

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

41a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

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)

kdpDE

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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_000913:720936..720976 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:b0694 (EcoliWiki Page)

NCBI GEO profiles for kdpE

microarray

GenExpDB:b0694 (EcoliWiki Page)

Summary of data for kdpE 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
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Notes

Accessions Related to kdpE Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10517

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0512

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0694

EcoGene

EcoGene:EG10517

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000510

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002366

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

  • AT5G61380 (score: 1.000; bootstrap: 100%)
  • AT5G60100 (score: 0.083)

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

E. coli O157

KDPE

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:52172

Pfam (EcoliWiki Page)

PF00072 Response regulator receiver domain

EcoCyc

EcoCyc:EG10517

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10517

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000510

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0512

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002366

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. ↑ 2.00 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 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).

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