yoeE: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

yoeE

Gene Synonym(s)

ECK1990, b1998, JW1980[1]

Product Desc.

hypothetical protein[2][3]

Product Synonyms(s)

CP4-44 prophage; predicted disrupted hemin or colicin receptor[1], YoeE[2][1], B1998[2][1]

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): yoeE[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.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

yoeE

Mnemonic
Synonyms

ECK1990, b1998, JW1980[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

44.58 minutes 

MG1655: 2068268..2068528
<gbrowseImage> name=NC_000913:2068268..2068528 source=MG1655 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2072381..2072641
<gbrowseImage> name=NC_007779:2072381..2072641 source=W3110 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

ΔyoeE (Keio:JW1980)

deletion

deletion

PMID:16738554

Shigen


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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

JW1980

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTCTGGAGATTCAGGGGGCCA

Primer 2:CCATTTAAGTGATATAGGGAGTC

3B12

Kohara Phage

Genobase

PMID:3038334

zed-3069::Tn10

Linked marker

CAG18451 = CGSC7395[4]

est. P1 cotransduction: 29% [5]

zef-3129::Tn10

Linked marker

CAG12099 = CGSC7397[4]

est. P1 cotransduction: 59% [5]
Synonyms:zee-3129::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:G7078

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG14308

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003664

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4350

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006636

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

YoeE

Synonyms

CP4-44 prophage; predicted disrupted hemin or colicin receptor[1], YoeE[2][1], B1998[2][1]

Product description

hypothetical protein[2][3]

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:0006974

response to DNA damage stimulus

PMID:11967071

IEP: Inferred from Expression Pattern

P

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
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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
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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 

 




Length






Mol. Wt






pI






Extinction coefficient












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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





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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=yoeE
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






EcoCyc





EcoCyc:G7078





Escherichia coli str. K-12 substr. MG1655 








EcoGene





EcoGene:EG14308





Escherichia coli str. K-12 substr. MG1655 








RegulonDB





RegulonDB:ECK120003664





Escherichia coli str. K-12 substr. MG1655 








EchoBASE





EchoBASE:EB4350





Escherichia coli str. K-12 substr. MG1655 








ASAP





ASAP:ABE-0006636





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)





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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)






yoeE 







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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_000913:2068248..2068288
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:b1998 (EcoliWiki Page)





NCBI GEO profiles for yoeE 








microarray





GenExpDB:b1998 (EcoliWiki Page) 





Summary of data for yoeE 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 (1467127..1467245) fused to gfpmut2.





OpenBioSystems





GFP fusion described in Zaslaver, et al.
Plate:109-AZ05; Well:G12[6] 







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Notes


Accessions Related to yoeE Expression


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







Database
Accession
Notes






EcoCyc





EcoCyc:G7078





Escherichia coli str. K-12 substr. MG1655 








EchoBASE





EchoBASE:EB4350





Escherichia coli str. K-12 substr. MG1655 








EcoliGenExpDB (EcoliWiki Page) 





EcoliGenExpDB:b1998










EcoGene





EcoGene:EG14308





Escherichia coli str. K-12 substr. MG1655 








RegulonDB





RegulonDB:ECK120003664





Escherichia coli str. K-12 substr. MG1655 








ASAP





ASAP:ABE-0006636





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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Do-It-Yourself Web Tools



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Notes


Families


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







Organism
Homologs (Statistics)
Comments






E. coli O157 





Z3159 





From ECOO157CYC 







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Notes


Families


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<protect>
See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.







Database
Accession
Notes





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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. ↑ 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. ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7  

    4. 

  4. ↑ 4.0 4.1 CGSC: The Coli Genetics Stock Center  

    5. 

  5. ↑ 5.0 5.1 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).  

    6. 

  6. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8  PubMed 

    7. 



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