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Gene |

Product(s) |

Expression|

Evolution |

References |

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Standard Name	tolB
Gene Synonym(s)	ECK0729, b0740, JW5100, lky, lkyA, tol-3^[1]
Product Desc.	TolB^[2]^[3]; Component of Tol-Pal Cell Envelope Complex^[2]; The Tol-Pal Cell Envelope Complex^[3]; The Colicin A Import System^[3]; Colicin S4 Transport System^[3] Uptake of group A colicins, mutants are tolerant to colicins E1-3, A, and K^[4]
Product Synonyms(s)	periplasmic protein^[1], B0740^[2]^[1], Lky^[2]^[1], LkyA^[2]^[1], TolB^[2]^[1] , ECK0729, JW5100, b0740
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): tolB-pal-ybgF^[2]
Regulation/Activity
Quick Links
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Notes

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Mutants have elevated OM vesiculation (McBroom, 2006).^[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	tolB
Mnemonic	Tolerance
Synonyms	ECK0729, b0740, JW5100, lky, lkyA, tol-3^[1]
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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	16.75 minutes	MG1655: 776963..778255 <gbrowseImage> name=NC_000913:776963..778255 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 758622..759914 <gbrowseImage> name=NC_012967:758622..759914 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 679723..681015 <gbrowseImage> name=NC_012759:679723..681015 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 778162..779454 <gbrowseImage> name=NC_007779:778162..779454 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 829555..830847 <gbrowseImage> name=NC_010473:829555..830847 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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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	777026	Edman degradation	PMID:7929011 PMID:9740056
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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)	Reference	Availability
tolB(del) (Keio:JW5100)	deletion	deletion	PMID:16738554	Shigen CGSC11174^[5]
tolB2				CGSC:7868
tolB789(del)::kan			PMID:16738554	CGSC:103164
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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
JW5100	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAAGCAGGCATTACGAGTAGC Primer 2:CCaAGATACGGCGACCAGGCAGG
18F11	Kohara Phage	Genobase	PMID:3038334
10G5	Kohara Phage	Genobase	PMID:3038334
asnB3057::Tn10	Linked marker	CAG18433 = CGSC7349^[5]	est. P1 cotransduction: 1% ^[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: 92% ^[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:EG11008	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11008	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000997	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945429	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1001	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002517	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	TolB
Synonyms	periplasmic protein^[1], B0740^[2]^[1], Lky^[2]^[1], LkyA^[2]^[1], TolB^[2]^[1] , ECK0729, JW5100, b0740
Product description	TolB^[2]^[3]; Component of Tol-Pal Cell Envelope Complex^[2]; The Tol-Pal Cell Envelope Complex^[3]; The Colicin A Import System^[3]; Colicin S4 Transport System^[3] Uptake of group A colicins, mutants are tolerant to colicins E1-3, A, and K^[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:0030288	outer membrane-bounded periplasmic space	PMID:2687247	IDA: Inferred from Direct Assay		C	Figure 8	complete
	GO:0005515	protein binding	PMID:9701827	IPI: Inferred from Physical Interaction	EcoliWiki:pal	F	in vivo cross-linking	complete
	GO:0005515	protein binding	PMID:9701827	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0043213	bacteriocin transport	PMID:9701827	IMP: Inferred from Mutant Phenotype		P		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:0017038	protein import	PMID:9701827	IMP: Inferred from Mutant Phenotype		P		complete
	GO:0015031	protein transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR007195	P	Seeded from EcoCyc (v14.0)	complete
	GO:0015031	protein transport	PMID:9701827	IMP: Inferred from Mutant Phenotype		P		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:0042597	periplasmic space	PMID:7929011	IDA: Inferred from Direct Assay		C		complete
	GO:0017038	protein import	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00671	P	Seeded from EcoCyc (v14.0)	complete
	GO:0030288	outer membrane-bounded periplasmic space	PMID:7929011	IDA: Inferred from Direct Assay		C		complete
	GO:0017038	protein import	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR014167	P	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
	GO:0005515	protein binding	PMID:9701827	IPI: Inferred from Physical Interaction	EcoliWiki:lpp	F	in vivo cross-linking	complete
	GO:0005515	protein binding	PMID:9701827	IPI: Inferred from Physical Interaction	EcoliWiki:ompA	F	in vivo cross-linking	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 Tol-Pal Cell Envelope Complex	could be indirect
Protein	rbsB		PMID:19402753	MALDI(Z-score):39.052235
Protein	Subunits of The Tol-Pal Cell Envelope Complex	could be indirect
Protein	Subunits of The Colicin A Import System	could be indirect
Protein	Subunits of Colicin S4 Transport System	could be indirect
Protein	Pal		PMID:9701827	in vivo cross-linking
Protein	Lpp		PMID:9701827	in vivo cross-linking
Protein	OmpA		PMID:9701827	in vivo cross-linking
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Evidence	Reference/Source
periplasm		From EcoCyc^[3]
Periplasm	PMID:17233825, PMID:7929011	EchoLocation:tolB
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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 MKQALRVAFG FLILWASVLH AEVRIVIDSG VDSGRPIGVV PFQWAGPGAA PEDIGGIVAA DLRNSGKFNP LDRARLPQQP GSAQEVQPAA WSALGIDAVV VGQVTPNPDG SYNVAYQLVD TGGAPGTVLA QNSYKVNKQW LRYAGHTASD EVFEKLTGIK GAFRTRIAYV VQTNGGQFPY ELRVSDYDGY NQFVVHRSPQ PLMSPAWSPD GSKLAYVTFE SGRSALVIQT LANGAVRQVA SFPRHNGAPA FSPDGSKLAF ALSKTGSLNL YVMDLASGQI RQVTDGRSNN TEPTWFPDSQ NLAFTSDQAG RPQVYKVNIN GGAPQRITWE GSQNQDADVS SDGKFMVMVS SNGGQQHIAK QDLATGGVQV LSSTFLDETP SLAPNGTMVI YSSSQGMGSV LNLVSTDGRF KARLPATDGQ VKFPAWSPYL
Length	430
Mol. Wt	45.954 kDa
pI	7.5 (calculated)
Extinction coefficient	63,370 (calc based on 13 Y, 8 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
motif	1-21	UniProt Manual:Signal Peptides	UniProt:P0A855
Domain	8..126	PF04052 TolB amino-terminal domain		PMID:19920124
Domain	197..226	PF07676 WD40-like Beta Propeller Repeat		PMID:19920124
Domain	236..272	PF07676 WD40-like Beta Propeller Repeat		PMID:19920124
Domain	280..316	PF07676 WD40-like Beta Propeller Repeat		PMID:19920124
Domain	367..402	PF07676 WD40-like Beta Propeller Repeat		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=tolB taxon=562,83333 </beststructure>

Models

View models at:

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</protect>

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:16128715	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945429	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002517	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A855	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11008	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11008	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945429	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000997	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1001	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	1.15E+03	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	Ecoli K-12	3.359+/-0.1	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.189241486	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	6049	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	2491	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	4026	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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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
tolB-pal-ybgF
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Figure courtesy of RegulonDB

</protect>

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_000913:776943..776983 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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

</protect>

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:b0740 (EcoliWiki Page)	NCBI GEO profiles for tolB
microarray	GenExpDB:b0740 (EcoliWiki Page)	Summary of data for tolB 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 (776754..777033) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ10; Well:G2^[7]
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Notes

Accessions Related to tolB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11008	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1001	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0740
EcoGene	EcoGene:EG11008	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000997	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002517	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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
Xenopus tropicalis	ENSXETP00000049181 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	TOLB	From SHIGELLACYC
E. coli O157	TOLB	From ECOO157CYC
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Do-It-Yourself Web Tools

Notes

Families

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

Database	Accession	Notes
Superfamily (EcoliWiki Page)	SUPERFAMILY:52964
Panther (EcoliWiki Page)	PTHR11731:SF4
Superfamily (EcoliWiki Page)	SUPERFAMILY:69304
Pfam (EcoliWiki Page)	PF04052 TolB amino-terminal domain
Pfam (EcoliWiki Page)	PF07676 WD40-like Beta Propeller Repeat
Pfam (EcoliWiki Page)	PF07676 WD40-like Beta Propeller Repeat
Pfam (EcoliWiki Page)	PF07676 WD40-like Beta Propeller Repeat
Pfam (EcoliWiki Page)	PF07676 WD40-like Beta Propeller Repeat
EcoCyc	EcoCyc:EG11008	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11008	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000997	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1001	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002517	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 ^1.11 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^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
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 ^3.5 ^3.6 ^3.7 ^3.8 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^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.
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ ^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).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

tolB:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to tolB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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