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Gene |

Product(s) |

Expression|

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Standard Name	btuF
Gene Synonym(s)	ECK0157, b0158, JW0154, yadT^[1], yadT
Product Desc.	periplasmic vitamin B12 binding protein^[2]^[3]; Component of vitamin B12 ABC transporter^[2]^[3]; vitamin B12 transport system^[3] B12 uptake, ABC transporter periplasmic binding protein^[4]
Product Synonyms(s)	vitamin B12 transporter subunit: periplasmic-binding component of ABC superfamily^[1], B0158^[2]^[1], BtuF^[2]^[1], YadT^[2]^[1] , ECK0157, JW0154, yadT, b0158
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): yadS^[2]
Regulation/Activity
Quick Links
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Notes

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Uncleaved precursor N-terminus was also sequenced, confirming this start site of translation. about 80% of the precursors had the initial Met cleaved. NESG Target EC1 (http://nesg.org).^[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	btuF
Mnemonic	B12 uptake
Synonyms	ECK0157, b0158, JW0154, yadT^[1], yadT
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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	3.83 minutes	MG1655: 178462..177662 <gbrowseImage> name=NC_000913:177662..178462 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 180504..181304 <gbrowseImage> name=NC_012967:180504..181304 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 177661..178461 <gbrowseImage> name=NC_012759:177661..178461 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 178462..177662 <gbrowseImage> name=NC_007779:177662..178462 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 152566..151766 <gbrowseImage> name=NC_010473:151766..152566 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	177665	Edman degradation	PMID:11790740
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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
btuF(del) (Keio:JW0154)	deletion	deletion			PMID:16738554	Shigen CGSC8421^[5]
yadT(del)::kan	deletion		Biolog:respiration	unable to respire Acetate	PMID:16095938
btuF772(del)::kan					PMID:16738554	CGSC:100220
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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
JW0154	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGCTAAGTCACTGTTCAGGGC Primer 2:CCATCTACCTGTGAAAGCGCATT
9H2	Kohara Phage	Genobase	PMID:3038334
4E4	Kohara Phage	Genobase	PMID:3038334
21C8	Kohara Phage	Genobase	PMID:3038334
zad-220::Tn10	Linked marker	CAG12025 = CGSC7326^[5]	est. P1 cotransduction: 32% ^[6]
yafC502::Tn10	Linked marker	CAG18436 = CGSC7328^[5]	est. P1 cotransduction: 7% ^[6] Synonyms:zae-502::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:EG12334	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12334	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947574	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002209	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2238	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000542	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	BtuF
Synonyms	vitamin B12 transporter subunit: periplasmic-binding component of ABC superfamily^[1], B0158^[2]^[1], BtuF^[2]^[1], YadT^[2]^[1] , ECK0157, JW0154, yadT, b0158
Product description	periplasmic vitamin B12 binding protein^[2]^[3]; Component of vitamin B12 ABC transporter^[2]^[3]; vitamin B12 transport system^[3] B12 uptake, ABC transporter periplasmic binding protein^[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:0005381	iron ion transmembrane transporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002491	F	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:0006827	high-affinity iron ion transport	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002491	P	Seeded from EcoCyc (v14.0)	complete
	GO:0015889	cobalamin transport	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01000	P	Seeded from EcoCyc (v14.0)	complete
	GO:0042597	periplasmic space	PMID:11790740	IDA: Inferred from Direct Assay		C		complete
	GO:0042597	periplasmic space	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01000	C	Seeded from EcoCyc (v14.0)	complete
	GO:0031419	cobalamin binding	PMID:11790740	IDA: Inferred from Direct Assay		F	Binding assay was performed with CN-[⁵⁷Co]Cbl	complete
	GO:0042597	periplasmic space	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0574	C	Seeded from EcoCyc (v14.0)	complete
	GO:0042597	periplasmic space	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0200	C	Seeded from EcoCyc (v14.0)	complete
	GO:0015889	cobalamin transport	PMID:11790740	IMP: Inferred from Mutant Phenotype		P	Table 3 and Figure 5	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
Protein	Subunits of vitamin B12 ABC transporter	could be indirect
Protein	Subunits of vitamin B12 transport system	could be indirect
Small Molecule	cobalamin (vitamin B12)	via filter binding assay AND ITC Kd= 15nM	PMID:11790740
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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	PMID:11790740	EchoLocation:btuF
Periplasm	osmotic shock treatment	PMID:11790740
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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 MAKSLFRALV ALSFLAPLWL NAAPRVITLS PANTELAFAA GITPVGVSSY SDYPPQAQKI EQVSTWQGMN LERIVALKPD LVIAWRGGNA ERQVDQLASL GIKVMWVDAT SIEQIANALR QLAPWSPQPD KAEQAAQSLL DQYAQLKAQY ADKPKKRVFL QFGINPPFTS GKESIQNQVL EVCGGENIFK DSRVPWPQVS REQVLARSPQ AIVITGGPDQ IPKIKQYWGE QLKIPVIPLT SDWFERASPR IILAAQQLCN ALSQVD
Length	266
Mol. Wt	29.366 kDa
pI	9.1 (calculated)
Extinction coefficient	51,450 - 51,700 (calc based on 5 Y, 8 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
motif	1-22	UniProt Manual:Signal Peptides	UniProt:P37028
Domain	26..231	PF01497 Periplasmic binding protein		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=btuF 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:16128151	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947574	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000542	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P37028	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG12334	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12334	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947574	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002209	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2238	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	Reference(s)
Protein	E. coli K-12 MG1655	141	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	38	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	33	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)
yadS
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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_000913:178442..178482 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:b0158 (EcoliWiki Page)	NCBI GEO profiles for btuF
microarray	GenExpDB:b0158 (EcoliWiki Page)	Summary of data for btuF 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 btuF Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG12334	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2238	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0158
EcoGene	EcoGene:EG12334	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002209	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000542	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	ENSXETP00000051689 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	YADT	From SHIGELLACYC
E. coli O157	YADT	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:53807
Pfam (EcoliWiki Page)	PF01497 Periplasmic binding protein
EcoCyc	EcoCyc:EG12334	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12334	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002209	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2238	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000542	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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 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 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 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).

btuF: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 btuF Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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