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!align=left |Standard Name
!align=left {{table_heading_style}} |Standard Name
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''yafY''  
''yafY''  
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!align=left |Gene Synonym(s)
!align=left {{table_heading_style}} |Gene Synonym(s)
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''ECK0253, b0251, JW0240''<ref name='LIB:Riley_2006'/>
''ECK0253, b0251, JW0240''<ref name='LIB:Riley_2006'/>
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!align=left |Product Desc.
!align=left {{table_heading_style}} |Product Desc.
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inner membrane lipoprotein YafY<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
inner membrane lipoprotein YafY<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
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Inner membrane lipoprotein, function unknown; overproduction stimulates degP expression; CP4-6; putative prophage remnant<ref name='LIB:EcoGene'/>
Inner membrane lipoprotein, function unknown; overproduction stimulates degP expression; CP4-6; putative prophage remnant<ref name='LIB:EcoGene'/>
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!align=left |Product Synonyms(s)
!align=left {{table_heading_style}} |Product Synonyms(s)
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CP4-6 prophage; predicted DNA-binding transcriptional regulator<ref name='LIB:Riley_2006'/>, B0251<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YafY<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
CP4-6 prophage; predicted DNA-binding transcriptional regulator<ref name='LIB:Riley_2006'/>, B0251<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YafY<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
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!align=left |Knock-Out Phenotype
!align=left {{table_heading_style}} |Function from GO
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'''Molecular Function'''
* GO:0005515 protein binding ([http://www.geneontology.org/GO.evidence.shtml IPI])


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!align=left |Regulation/Expression
!align=left {{table_heading_style}} |Knock-Out Phenotype
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!align=left {{table_heading_style}} |Regulation/Expression
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transcription unit(s): [[:Category:Txn_unit:ykfI|ykfI]]<ref name='LIB:EcoCyc10.6'/>  
transcription unit(s): [[:Category:Txn_unit:ykfI|ykfI]]<ref name='LIB:EcoCyc10.6'/>  
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!align=left |Regulation/Activity
!align=left {{table_heading_style}} |Regulation/Activity
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!align=left {{table_heading_style}} |Quick Links
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[http://ecoliwiki.net/tools/display_dna.php?gene=yafY&loc=MG1655:266191..265334,W3110:266191..265334,DH10B:239881..239438 DNA display]&nbsp;&nbsp;&nbsp; [http://ecoliwiki.net/tools/display_protein.php?f=NC_000913&start=239881&end=239438&gene=yafY&aa=mtqaerrhdrlavrlsliisrlvagetlsvrklaaefgvsvrtlrrdfrerlmyldleyqsgychyrhcchrhhseqnrgvrqsrgpdpchccrtadgrwrsrccqcradtvrrraggyfrghlclcqsgssdfrkkimkrktlpllalvattlfliacddrsddlkaiskfkdltpprfsdvvshqddvseewsqvdylsgptlqvlrtrqspdgcedgsyyylvdmqektvqplmnalciadnikleyqevtdpytkekyfeyahdgklmgqllipsnpdnqe Protein display]&nbsp;&nbsp;&nbsp; [http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=Search&Term=yafY+AND+escherichia+coli Pubmed(yafY)]&nbsp;&nbsp;&nbsp; [http://trimer.tamu.edu/cgi-bin/textpresso/2.1/ecoli/search?searchstring=yafY Textpresso(yafY)]


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Revision as of 23:22, 21 January 2010

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
References Suggestions

See Help:Quickview for help with entering information in the Quickview table.

Standard Name

yafY

Gene Synonym(s)

ECK0253, b0251, JW0240[1]

Product Desc.

inner membrane lipoprotein YafY[2][3]

Inner membrane lipoprotein, function unknown; overproduction stimulates degP expression; CP4-6; putative prophage remnant[4]

Product Synonyms(s)

CP4-6 prophage; predicted DNA-binding transcriptional regulator[1], B0251[2][1], YafY[2][1]

Function from GO

Molecular Function

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ykfI[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(yafY)    Textpresso(yafY)

edit table

See Help:Quickview for help with entering information in the Quickview table.

Notes

[back to top]


yfjS and yafY are homologs. The first 17 aa of YafY are a type II signal peptide (Matsuyama, unpublished, cited in Miyadai, 2004). Although overproduction of YafY induces degP expression, YjfS does not; chimeric protein experiments demonstrate that the N- and C- termini of YafY have the degP stimulatory determinants (Miyadai, 2004). Originally, the annotation of yafY was fused to the upstream pseudogene ykfK. It is possible that a YkfK-YafW chimeric pseudogene product is made in vivo, but no function would be expected since cleavage of the type II signal is likely to be blocked in any chimeric protein synthesized. Expression of the native YafY lipoprotein gene in the chromosome has not yet been reported. E. coli B has a third protein in this family (UniProt:A2UFU7), 55% identical to YafY and YfjS, that demonstrates conservation of the shorter ORFs and their lipoprotein signals in this novel prophage gene family.[4]



References

[back to top]


  1. ↑ 1.0 1.1 1.2 1.3 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
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