{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Standard Name	uspF
Gene Synonym(s)	ECK1371, b1376, JW1370, ynaF, yzzL, up03^[1]
Product Desc.	nucleotide binding protein^[2]; nucleotide binding filament protein^[3] Stress-induced protein, binds ATP; dimer^[4]
Product Synonyms(s)	stress-induced protein, ATP-binding protein^[1], B1376^[2]^[1], YzzL^[2]^[1], UspF^[2]^[1], YnaF^[2]^[1] , ECK1371, JW1370, ynaF, yzzL, b1376
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): uspF^[2]
Regulation/Activity
Quick Links
edit table

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

[back to top]

NMR solution structure determined for E. coli UspF(YnaF) (Saveanu, 2002). otherPDB (M. jannaschii): 1MJH.^[4]

Gene

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css> <protect>

Nomenclature

[back to top]

See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	uspF
Mnemonic	Universal stress protein
Synonyms	ECK1371, b1376, JW1370, ynaF, yzzL, up03^[1]
edit table

</protect>

Notes

Location(s) and DNA Sequence

[back to top]

<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	30.89 minutes	MG1655: 1433643..1433209 <gbrowseImage> name=NC_000913:1433209..1433643 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
BW2952		NC_012759: 1325268..1325702 <gbrowseImage> name=NC_012759:1325268..1325702 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1437333..1436899 <gbrowseImage> name=NC_007779:1436899..1437333 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 1524238..1523804 <gbrowseImage> name=NC_010473:1523804..1524238 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
edit table

</protect>

Notes

Sequence Features

[back to top]

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	1433209	Edman degradation	PMID:8740179 PMID:9298646
edit table

Notes

Alleles and Phenotypes

[back to top]

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
ΔuspF (Keio:JW1370)	deletion	deletion			PMID:16738554	Shigen
ΔyzzL::kan	deletion		Biolog:respiration	unable to respire D-Mannose	PMID:16095938
edit table

Notes

Genetic Interactions

[back to top]

Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
edit table

</protect>

Notes

Genetic Resources

[back to top]

See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW1370	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAACAGAACGATTCTTGTCCC Primer 2:CCGCGCACAACCAGCACGGAGCA
4E7	Kohara Phage	Genobase	PMID:3038334
1E7	Kohara Phage	Genobase	PMID:3038334
recT3061::Tn10	Linked marker	CAG12081 = CGSC7375^[5]	est. P1 cotransduction: 43% ^[6] Synonyms:zcj-3061::Tn10, zda-3061::Tn10
zhj-3076::Tn10	Linked marker	CAG18640 = CGSC7453^[5]	est. P1 cotransduction: 99% ^[6]
edit table

Notes

Accessions in Other Databases

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:G6699	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12674	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003294	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945948	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2539	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004605	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Product(s)

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Nomenclature

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

Standard name	UspF
Synonyms	stress-induced protein, ATP-binding protein^[1], B1376^[2]^[1], YzzL^[2]^[1], UspF^[2]^[1], YnaF^[2]^[1] , ECK1371, JW1370, ynaF, yzzL, b1376
Product description	nucleotide binding protein^[2]; nucleotide binding filament protein^[3] Stress-induced protein, binds ATP; dimer^[4]
EC number (for enzymes)
edit table

Notes

Function

[back to top]

<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:0006950	response to stress	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR006016	P	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	PMID:12381839	IDA: Inferred from Direct Assay		F		complete
edit table

Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	References	Evidence
Protein	rplO	PMID:16606699	Experiment(s):EBI-1139703
Protein	ssuE	PMID:16606699	Experiment(s):EBI-1139703
Protein	rplD	PMID:16606699	Experiment(s):EBI-1139703
Protein	dnaK	PMID:16606699	Experiment(s):EBI-1139703
Protein	paaB	PMID:16606699	Experiment(s):EBI-1139703
Protein	yfjM	PMID:16606699	Experiment(s):EBI-1139703
Protein	rpsM	PMID:16606699	Experiment(s):EBI-1139703
Protein	hflK	PMID:16606699	Experiment(s):EBI-1139703
Protein	rplE	PMID:16606699	Experiment(s):EBI-1139703
Protein	rluC	PMID:16606699	Experiment(s):EBI-1139703
Protein	ycgL	PMID:16606699	Experiment(s):EBI-1139703
Protein	nadE	PMID:16606699	Experiment(s):EBI-1139703
Protein	matC	PMID:16606699	Experiment(s):EBI-1139703
Protein	rplS	PMID:16606699	Experiment(s):EBI-1139703
Protein	ybaO	PMID:16606699	Experiment(s):EBI-1139703
Protein	intB	PMID:16606699	Experiment(s):EBI-1139703
Protein	secB	PMID:16606699	Experiment(s):EBI-1139703
Protein	rpsI	PMID:16606699	Experiment(s):EBI-1139703
Protein	cybC	PMID:16606699	Experiment(s):EBI-1139703
Protein	rplS	PMID:19402753	LCMS(ID Probability):99.6
Protein	ihfA	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsC	PMID:19402753	LCMS(ID Probability):99.6
Protein	secA	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplD	PMID:19402753	LCMS(ID Probability):99.6
Protein	yohF	PMID:19402753	LCMS(ID Probability):99.6
Protein	lptB	PMID:19402753	LCMS(ID Probability):99.4
Protein	argS	PMID:19402753	LCMS(ID Probability):99.6
edit table

</protect>

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		PMID:8391533	EchoLocation:uspF
edit table

Notes

Structure and Physical Properties

[back to top]

<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 MNSVITQKVS SGVTLYADTK TGGFMNRTIL VPIDISDSEL TQRVISHVEE EAKIDDAEVH FLTVIPSLPY YASLGLAYSA ELPAMDDLKA EAKSQLEEII KKFKLPTDRV HVHVEEGSPK DRILELAKKI PAHMIIIASH RPDITTYLLG SNAAAVVRHA ECSVLVVR
Length	168
Mol. Wt	18.503 kDa
pI	6.2 (calculated)
Extinction coefficient	7,450 - 7,575 (calc based on 5 Y, 0 W, and 1 C residues)
edit table

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	1..144	PF00582 Universal stress protein family		PMID:19920124
edit table

<motif_map/>

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

Structures

<beststructure> gene=uspF taxon=562,83333 </beststructure>

Models

View models at:

edit table

</protect>

Structure figures

</protect>

Notes

Gene Product Resources

[back to top]

See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
edit table

Notes

Accessions in Other Databases

[back to top]

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

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:90111262	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945948	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004605	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P37903	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G6699	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12674	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945948	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003294	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2539	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Expression

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

[back to top]

See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Notes	Reference(s)
Protein	Ecoli K-12	125.83+/-0.999	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.39359+/-0.07692	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by FISH	PMID:20671182
Protein	E. coli K-12 MG1655	189	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	633	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	176	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
edit table

Notes

Transcription and Transcriptional Regulation

[back to top]

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

Transcription unit(s)
uspF
edit table

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

[back to top]

<protect><gbrowseImage> name=NC_000913:1433623..1433663 source=MG1655 flip=1 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

[back to top]

<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
edit table

Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b1376 (EcoliWiki Page)	NCBI GEO profiles for uspF
microarray	GenExpDB:b1376 (EcoliWiki Page)	Summary of data for uspF from multiple microarray studies
edit table

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 (1433615..1433836) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ16; Well:B7^[7]
edit table

Notes

Accessions Related to uspF Expression

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:G6699	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2539	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1376
EcoGene	EcoGene:EG12674	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003294	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004605	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Evolution

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Homologs in Other Organisms

[back to top]

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

Organism	Homologs (Statistics)	Comments
Shigella flexneri	YNAF	From SHIGELLACYC
E. coli O157	YNAF	From ECOO157CYC
edit table

Do-It-Yourself Web Tools

Notes

Families

[back to top]

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

Database	Accession	Notes
Superfamily (EcoliWiki Page)	SUPERFAMILY:52402
Pfam (EcoliWiki Page)	PF00582 Universal stress protein family
EcoCyc	EcoCyc:G6699	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12674	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120003294	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2539	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004605	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

References

[back to top]

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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 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 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

uspF:On One Page

Quickview

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 uspF Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

Categories

Navigation menu

Search