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Standard Name	potF
Gene Synonym(s)	ECK0845, b0854, JW0838^[1], JW0838
Product Desc.	PotF^[2]^[3]; Component of putrescine ABC transporter^[2]^[3] Putrescine ABC transporter periplasmic binding protein^[4]
Product Synonyms(s)	putrescine transporter subunit: periplasmic-binding component of ABC superfamily^[1], B0854^[2]^[1], PotF^[2]^[1] , ECK0845, JW0838, b0854
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): potFGHI^[2]
Regulation/Activity
Quick Links
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Notes

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PotIHGF putrescine ABC transport system.^[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	potF
Mnemonic	Putrescine-ornithine transporter
Synonyms	ECK0845, b0854, JW0838^[1], JW0838
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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	19.25 minutes	MG1655: 893007..894119 <gbrowseImage> name=NC_000913:893007..894119 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 910491..911603 <gbrowseImage> name=NC_012967:910491..911603 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 795975..797087 <gbrowseImage> name=NC_012759:795975..797087 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 894206..895318 <gbrowseImage> name=NC_007779:894206..895318 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 946935..948047 <gbrowseImage> name=NC_010473:946935..948047 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	893085	Edman degradation	PMID:8416922 PMID:9298646
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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
ΔpotF (Keio:JW0838)	deletion	deletion	PMID:16738554	Shigen CGSC8875^[5]
ΔpotF755::kan			PMID:16738554	CGSC:102408
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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
JW0838	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCACCGCCTTAAATAAAAAATG Primer 2:CCTTTTCCGCTCTTCACTTTGGT
5F4	Kohara Phage	Genobase	PMID:3038334
zbh-29::Tn10	Linked marker	CAG18493 = CGSC7353^[5]	est. P1 cotransduction: 1% ^[6] Synonyms:zbi-29::Tn10
zca-1230::Tn10	Linked marker	CAG18478 = CGSC7356^[5]	est. P1 cotransduction: 8% ^[6] Synonyms:zbj-1230::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:EG11629	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11629	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001577	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945480	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1586	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002913	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	PotF
Synonyms	putrescine transporter subunit: periplasmic-binding component of ABC superfamily^[1], B0854^[2]^[1], PotF^[2]^[1] , ECK0845, JW0838, b0854
Product description	PotF^[2]^[3]; Component of putrescine ABC transporter^[2]^[3] Putrescine 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:0015594	putrescine-importing ATPase activity	PMID:8416922	IMP: Inferred from Mutant Phenotype		F	Seeded from EcoCyc (v14.0)	complete
	GO:0015594	putrescine-importing ATPase activity	PMID:8416922			F	Seeded from EcoCyc (v14.0)	Missing: evidence
	GO:0015847	putrescine transport	PMID:8416922	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc (v14.0)	complete
	GO:0030288	outer membrane-bounded periplasmic space	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001188	C	Seeded from EcoCyc (v14.0)	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:0043190	ATP-binding cassette (ABC) transporter complex	PMID:8416922			C	Seeded from EcoCyc (v14.0)	Missing: evidence
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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 putrescine ABC transporter	could be indirect
Protein	fur		PMID:16606699	Experiment(s):EBI-1138191
Protein	uspG		PMID:16606699	Experiment(s):EBI-1138191
Protein	fusA		PMID:19402753	MALDI(Z-score):28.221673
Protein	pflB		PMID:19402753	MALDI(Z-score):27.986297
Protein	ahpC		PMID:19402753	MALDI(Z-score):20.931933
Protein	tig		PMID:19402753	MALDI(Z-score):23.014425
Protein	eno		PMID:19402753	MALDI(Z-score):28.712136
Protein	pgk		PMID:19402753	MALDI(Z-score):34.534879
Protein	clpB		PMID:19402753	MALDI(Z-score):27.583822
Protein	rpsD		PMID:19402753	MALDI(Z-score):21.341599
Protein	phoA		PMID:19402753	MALDI(Z-score):17.165331
Protein	rpsC		PMID:19402753	MALDI(Z-score):26.836248
Protein	wrbA		PMID:19402753	MALDI(Z-score):24.054961
Protein	tnaA		PMID:19402753	MALDI(Z-score):26.433080
Protein	groS		PMID:19402753	MALDI(Z-score):22.946739
Protein	rpoA		PMID:19402753	MALDI(Z-score):36.287334
Protein	deoD		PMID:19402753	MALDI(Z-score):20.665300
Protein	udp		PMID:19402753	MALDI(Z-score):29.952477
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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:9298646	EchoLocation:potF
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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 MTALNKKWLS GLVAGALMAV SVGTLAAEQK TLHIYNWSDY IAPDTVANFE KETGIKVVYD VFDSNEVLEG KLMAGSTGFD LVVPSASFLE RQLTAGVFQP LDKSKLPEWK NLDPELLKLV AKHDPDNKFA MPYMWATTGI GYNVDKVKAV LGENAPVDSW DLILKPENLE KLKSCGVSFL DAPEEVFATV LNYLGKDPNS TKADDYTGPA TDLLLKLRPN IRYFHSSQYI NDLANGDICV AIGWAGDVWQ ASNRAKEAKN GVNVSFSIPK EGAMAFFDVF AMPADAKNKD EAYQFLNYLL RPDVVAHISD HVFYANANKA ATPLVSAEVR ENPGIYPPAD VRAKLFTLKV QDPKIDRVRT RAWTKVKSGK
Length	370
Mol. Wt	40.84 kDa
pI	6.1 (calculated)
Extinction coefficient	63,370 - 63,620 (calc based on 13 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	1-26	UniProt Manual:Signal Peptides	UniProt:P31133
Domain	34..306	PF01547 Bacterial extracellular solute-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=potF 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:16128822	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945480	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002913	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P31133	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11629	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11629	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945480	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001577	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1586	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	2.23E+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 EMG2	200	molecules/cell	Medium: MOPS glucose minimal Temperature (°C): 37 Doubling time (min): Growth phase: Exponential OD: OD600 = 0.2 to 0.25 other: aerated	Quantitative protein sequencing	Spot ID: Mll6	PMID: 9298646
Protein	E. coli K-12 MG1655	257	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	1061	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	95	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)
potFGHI
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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_000913:892987..893027 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:b0854 (EcoliWiki Page)	NCBI GEO profiles for potF
microarray	GenExpDB:b0854 (EcoliWiki Page)	Summary of data for potF 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 (892579..893050) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ15; Well:B6^[7]
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Notes

Accessions Related to potF Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11629	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1586	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0854
EcoGene	EcoGene:EG11629	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001577	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002913	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
Arabidopsis thaliana	AT1G31410 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000038767 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	POTF	From SHIGELLACYC
E. coli O157	POTF	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
Pfam (EcoliWiki Page)	PF01547 Bacterial extracellular solute-binding protein
Superfamily (EcoliWiki Page)	SUPERFAMILY:53850
EcoCyc	EcoCyc:EG11629	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11629	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001577	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1586	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002913	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 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 ^2.6 ^2.7 ^2.8 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 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

potF: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 potF Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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