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{{Tab On|Quickview|yafY}}{{Tab|Gene|yafY}}{{Tab|Gene Product(s)|yafY}}{{Tab|Expression|yafY}}{{Tab|Evolution|yafY}}{{Tab|On One Page|yafY}}{{TabsBottom}}
{{Tab On|Quickview|yafY}}{{Tab|Gene|yafY}}{{Tab|Gene Product(s)|yafY}}{{Tab|Expression|yafY}}{{Tab|Evolution|yafY}}{{Tab|On One Page|yafY}}{{TabsBottom}}
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!{{table_heading_style}} |Gene Name
!align=left {{table_heading_style}} |Standard Name
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[[yafY:Gene|''yafY]]'' (synonyms: ''ECK0253, b0251, JW0240'')<ref name='LIB:Riley_2006'/>
''yafY''
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!{{table_heading_style}} |Product(s)  
!align=left {{table_heading_style}} |Gene Synonym(s)
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[[yafY:Gene_Product(s)|YafY product]]<ref name='LIB:Riley_2006'/>: CP4-6 prophage; predicted DNA-binding transcriptional regulator product, B0251 product
''ECK0253, b0251, JW0240''<ref name='LIB:Riley_2006'/>, JW0240''
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!{{table_heading_style}} |Description
!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'/>


Inner membrane lipoprotein, function unknown; overproduction stimulates degP expression; CP4-6; putative prophage remnant<ref name='LIB:EcoGene'/>
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!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'/> , ECK0253, JW0240, b0251''
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!align=left {{table_heading_style}} |Function from GO
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<GO_nr />
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!{{table_heading_style}} |Knock-Out Phenotype
!align=left {{table_heading_style}} |Knock-Out Phenotype
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!{{table_heading_style}} |Regulation/Expression
!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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!{{table_heading_style}} |Regulation/Activity
!align=left {{table_heading_style}} |Regulation/Activity
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[[File:porteco.png|link=http://porteco.org/AjaxSearch.jsp?searchString=yafY&s=search]] [[File:EcoCyc.gif|link=http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G6126]] [[File:regulondb.jpg|link=http://regulondb.ccg.unam.mx/gene?term=ECK120002746&organism=ECK12&format=jsp&type=gene ]] <br/><br/> [[File:dnadisplay.png|link=http://ecoliwiki.net/tools/display_dna.php?gene=yafY&loc=MG1655%3A266191..265334,W3110%3A266191..265334,DH10B%3A239881..239438,BW2952%3A265333..265776]] [[File:proteindisplay.png|link=http://ecoliwiki.net/tools/display_protein.php?f=NC_000913&start=265333&end=265776&gene=yafY&aa=mtqaerrhdrlavrlsliisrlvagetlsvrklaaefgvsvrtlrrdfrerlmyldleyqsgychyrhcchrhhseqnrgvrqsrgpdpchccrtadgrwrsrccqcradtvrrraggyfrghlclcqsgssdfrkkimkrktlpllalvattlfliacddrsddlkaiskfkdltpprfsdvvshqddvseewsqvdylsgptlqvlrtrqspdgcedgsyyylvdmqektvqplmnalciadnikleyqevtdpytkekyfeyahdgklmgqllipsnpdnqe]]&nbsp;&nbsp;  [[File:pubmed.jpg|link=http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=Search&Term=yafY+AND+escherichia+coli]]&nbsp;&nbsp;  [[File:textpresso.jpg|link=http://textpresso.tamu.edu/cgi-bin/textpresso/search?q=yafY]]&nbsp;&nbsp;
 
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==Notes==
===Notes===
{{BacktoTop}}
 
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 (UniProtKB:A2UFU7), 55% identical to YafY and YfjS, that demonstrates conservation of the shorter ORFs and their lipoprotein signals in this novel prophage gene family.<ref name='LIB:EcoGene'/>
 




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==References==
==References==
{{BacktoTop}}
<references/>
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Latest revision as of 02:53, 30 June 2019

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

yafY

Gene Synonym(s)

ECK0253, b0251, JW0240[1], JW0240

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] , ECK0253, JW0240, b0251

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ykfI[2]

Regulation/Activity
Quick Links



        

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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 (UniProtKB: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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