exbB: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

exbB

Gene Synonym(s)

ECK2999, b3006, JW2974[1], JW2974

Product Desc.

ExbB protein; uptake of enterochelin; tonB-dependent uptake of B colicins[2][3];

Component of TonB energy transducing system[3]; Outer Membrane Ferric Citrate Transport System[3]; Outer Membrane Ferrichrome Transport System[3]; Outer Membrane Ferric Enterobactin Transport System[3]; vitamin B12 outer membrane transport complex[3]; ferric dicitrate uptake system[3]; ferrichrome uptake system[3]; Ferric Enterobactin Transport System[3]; vitamin B12 transport system[3]

Uptake of enterochelin; resistance or sensitivity to colicins; similarity with TolQ[4]

Product Synonyms(s)

membrane spanning protein in TonB-ExbB-ExbD complex[1], B3006[2][1], ExbB[2][1] , ECK2999, JW2974, b3006

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): exbBD[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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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

exbB

Mnemonic

Export

Synonyms

ECK2999, b3006, JW2974[1], JW2974

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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

67.88 minutes 

MG1655: 3150006..3149272
<gbrowseImage> name=NC_000913:3149272..3150006 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3086156..3085422
<gbrowseImage> name=NC_012967:3085422..3086156 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3036420..3037154
<gbrowseImage> name=NC_012759:3036420..3037154 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3150640..3149906
<gbrowseImage> name=NC_007779:3149906..3150640 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3247751..3247017
<gbrowseImage> name=NC_010473:3247017..3247751 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

exbB(del) (Keio:JW2974)

deletion

deletion

PMID:16738554

Shigen
CGSC10285[5]

exbB::Tn5KAN-I-SceI (FB21009)

Insertion at nt 111 in Plus orientation

PMID:15262929

E. coli Genome Project:FB21009

contains pKD46

exbB::Tn5KAN-I-SceI (FB21010)

Insertion at nt 111 in Plus orientation

PMID:15262929

E. coli Genome Project:FB21010

does not contain pKD46

exbB41

CGSC:8919

exbB779(del)::kan

PMID:16738554

CGSC:100764

ExbB-

Resistant to

Resistant to several colicins and bacteriophage 80.

PMID:3309133

See page 3255

exbB in strain H1388 (pKE67)

exbB (pKE67)

Resistant to

Resistant to Albomycin

PMID:2670903

Strain: H1388

Table 3

exbB in strain P575

Resistant to

Tolerance to:

  • Colicin B
  • Colicin D
  • colicin G
  • Colicin H
  • Colicin Ia
  • Colicin Ib
  • colicin M
  • colicin S1

PMID:6433

Strain: P575

Table 5

exbB in strain P575

Resistant to

Partial tolerance to colicin V

PMID:6433

Strain: P575

Table 5

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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

JW2974

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGGTAATAATTTAATGCAGAC

Primer 2:CCTCCTGCGCGTAATTTTTGTGC

5C10

Kohara Phage

Genobase

PMID:3038334

6H4

Kohara Phage

Genobase

PMID:3038334

nupG511::Tn10

Linked marker

CAG18472 = CGSC7433[5]

est. P1 cotransduction: 13% [6]

metC162::Tn10

Linked marker

CAG18475 = CGSC7435[5]

est. P1 cotransduction: 97% [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:EG10271

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10271

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000265

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945420

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0267

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009869

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

ExbB

Synonyms

membrane spanning protein in TonB-ExbB-ExbD complex[1], B3006[2][1], ExbB[2][1] , ECK2999, JW2974, b3006

Product description

ExbB protein; uptake of enterochelin; tonB-dependent uptake of B colicins[2][3];

Component of TonB energy transducing system[3]; Outer Membrane Ferric Citrate Transport System[3]; Outer Membrane Ferrichrome Transport System[3]; Outer Membrane Ferric Enterobactin Transport System[3]; vitamin B12 outer membrane transport complex[3]; ferric dicitrate uptake system[3]; ferrichrome uptake system[3]; Ferric Enterobactin Transport System[3]; vitamin B12 transport system[3]

Uptake of enterochelin; resistance or sensitivity to colicins; similarity with TolQ[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:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0006810

transport

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002898

P

Seeded from EcoCyc (v14.0)

complete

GO:0006810

transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc (v14.0)

complete

GO:0008565

protein transporter activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002898

F

Seeded from EcoCyc (v14.0)

complete

GO:0015031

protein transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0653

P

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002898

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9909

C

Seeded from EcoCyc (v14.0)

complete

GO:0043213

bacteriocin transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0080

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

Subunits of TonB energy transducing system

could be indirect

Protein

rpmB

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsA

PMID:19402753

LCMS(ID Probability):98.5 MALDI(Z-score):32.748510

Protein

eno

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsP

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753

LCMS(ID Probability):99.6

Protein

gapA

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):35.305426

Protein

ahpC

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsF

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplR

PMID:19402753

LCMS(ID Probability):99.6

Protein

groS

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):18.365315

Protein

yfiD

PMID:19402753

LCMS(ID Probability):99.6

Protein

atpA

PMID:19402753

MALDI(Z-score):28.210375

Protein

rplK

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplU

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplI

PMID:19402753

LCMS(ID Probability):99.6

Protein

fusA

PMID:19402753

MALDI(Z-score):25.260719

Protein

rfaD

PMID:19402753

LCMS(ID Probability):99.5 MALDI(Z-score):39.677095

Protein

hns

PMID:19402753

LCMS(ID Probability):99.6

Protein

gadB

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):7.596208

Protein

gnd

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):9.140990

Protein

rpsJ

PMID:19402753

LCMS(ID Probability):99.6

Protein

pstS

PMID:19402753

MALDI(Z-score):18.365093

Protein

pflB

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):27.960439

Protein

rplM

PMID:19402753

LCMS(ID Probability):99.6

Protein

dnaJ

PMID:19402753

MALDI(Z-score):24.937705

Protein

hupB

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplB

PMID:19402753

LCMS(ID Probability):92.3 MALDI(Z-score):32.449290

Protein

infB

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):4.828399

Protein

hupA

PMID:19402753

LCMS(ID Probability):99.6

Protein

dps

PMID:19402753

LCMS(ID Probability):99.6

Protein

adhE

PMID:19402753

MALDI(Z-score):45.746765

Protein

clpB

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):26.333029

Protein

rplD

PMID:19402753

LCMS(ID Probability):99.6

Protein

gpmA

PMID:19402753

LCMS(ID Probability):99.6

Protein

malP

PMID:19402753

MALDI(Z-score):34.455115

Protein

rplW

PMID:19402753

LCMS(ID Probability):99.6

Protein

nadC

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplY

PMID:19402753

LCMS(ID Probability):99.6

Protein

phoA

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):4.715796

Protein

htpG

PMID:19402753

MALDI(Z-score):25.593506

Protein

cspC

PMID:19402753

LCMS(ID Probability):99.6

Protein

nuoC

PMID:19402753

MALDI(Z-score):25.745725

Protein

purA

PMID:19402753

LCMS(ID Probability):99.6

Protein

queA

PMID:19402753

LCMS(ID Probability):99.6

Protein

ftsH

PMID:19402753

MALDI(Z-score):17.902344

Protein

pykF

PMID:19402753

MALDI(Z-score):23.175421

Protein

tnaA

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):26.481063

Protein

nuoE

PMID:19402753

LCMS(ID Probability):99.6

Protein

kdgK

PMID:19402753

LCMS(ID Probability):99.6

Protein

lysU

PMID:19402753

MALDI(Z-score):27.700815

Protein

nuoF

PMID:19402753

LCMS(ID Probability):98.5

Protein

otsA

PMID:19402753

LCMS(ID Probability):99.6

Protein

hflX

PMID:19402753

LCMS(ID Probability):99.6

Protein

Subunits of Outer Membrane Ferric Citrate Transport System

could be indirect

Protein

Subunits of Outer Membrane Ferrichrome Transport System

could be indirect

Protein

Subunits of Outer Membrane Ferric Enterobactin Transport System

could be indirect

Protein

Subunits of vitamin B12 outer membrane transport complex

could be indirect

Protein

Subunits of ferric dicitrate uptake system

could be indirect

Protein

Subunits of ferrichrome uptake system

could be indirect

Protein

Subunits of Ferric Enterobactin Transport System

could be indirect

Protein

Subunits of vitamin B12 transport system

could be indirect


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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

plasma membrane

C-terminus localized in the cytoplasm with 3 predicted transmembrane domains

Daley et al. (2005) [7]


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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 

MGNNLMQTDL SVWGMYQHAD IVVKCVMIGL ILASVVTWAI FFSKSVEFFN QKRRLKREQQ
LLAEARSLNQ ANDIAADFGS KSLSLHLLNE AQNELELSEG SDDNEGIKER TSFRLERRVA
AVGRQMGRGN GYLATIGAIS PFVGLFGTVW GIMNSFIGIA QTQTTNLAVV APGIAEALLA
TAIGLVAAIP AVVIYNVFAR QIGGFKAMLG DVAAQVLLLQ SRDLDLEASA AAHPVRVAQK LRAG
Length

244

Mol. Wt

26.287 kDa

pI

8.3 (calculated)

Extinction coefficient

20,970 - 21,095 (calc based on 3 Y, 3 W, and 1 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

76..214

PF01618 MotA/TolQ/ExbB proton channel family

PMID:19920124

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<motif_map/>

tmhmm.php?gene=exbB&show=pic&.jpg
Click the image to view raw output from TMHMM.

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

Structures

<beststructure> gene=exbB 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:16130904

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945420

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009869

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0ABU7

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10271

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10271

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945420

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000265

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0267

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 MC4100

6.64E+02

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

E. coli K-12 MG1655

1995

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

777

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

695

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)

exbBD

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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_000913:3149986..3150026 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:b3006 (EcoliWiki Page)

NCBI GEO profiles for exbB

microarray

GenExpDB:b3006 (EcoliWiki Page)

Summary of data for exbB 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 exbB Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10271

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0267

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3006

EcoGene

EcoGene:EG10271

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000265

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009869

Escherichia coli str. K-12 substr. MG1655

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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.

Organism Homologs (Statistics) Comments

Shigella flexneri

EXBB

From SHIGELLACYC

E. coli O157

EXBB

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)

PF01618 MotA/TolQ/ExbB proton channel family

EcoCyc

EcoCyc:EG10271

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10271

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000265

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0267

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009869

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. ↑ 3.00 3.01 3.02 3.03 3.04 3.05 3.06 3.07 3.08 3.09 3.10 3.11 3.12 3.13 3.14 3.15 3.16 3.17 3.18 3.19 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 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. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed

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