rhmA:Quickview: Difference between revisions

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{{Tab On|Quickview|yfaU}}{{Tab|Gene|yfaU}}{{Tab|Gene Product(s)|yfaU}}{{Tab|Expression|yfaU}}{{Tab|Evolution|yfaU}}{{Tab|On One Page|yfaU}}{{TabsBottom}}
{{Tab On|Quickview|rhmA}}{{Tab|Gene|rhmA}}{{Tab|Gene Product(s)|rhmA}}{{Tab|Expression|rhmA}}{{Tab|Evolution|rhmA}}{{Tab|On One Page|rhmA}}{{TabsBottom}}
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*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
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{| id="Z49b02ef28c9f0"  class=" tableEdit New_Quickview_Table"   
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!align=left {{table_heading_style}} |Standard Name
!align=left {{table_heading_style}} |Standard Name
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''yfaU''  
''rhmA''
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!align=left {{table_heading_style}} |Gene Synonym(s)
!align=left {{table_heading_style}} |Gene Synonym(s)
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''ECK2238, b2245, JW2239''<ref name='LIB:Riley_2006'/>
''ECK2238, b2245, JW2239'', yfaU<ref name='LIB:Riley_2006'/>, JW2239, yfaU''
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!align=left {{table_heading_style}} |Product Desc.
!align=left {{table_heading_style}} |Product Desc.
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predicted aldolase<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>.  Crystal structure shows that YfaU is a
predicted aldolase<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>.  Crystal structure shows that RhmA is a
metal-dependent class II aldolase belonging
metal-dependent class II aldolase belonging
to the pyruvate/enolpyruvate binding (�/R)8 barrel superfamily.<ref name='PMID:18754683 '/>, Genomic context suggested a 2-dehydro-3-deoxy
to the pyruvate/enolpyruvate binding (�/R)8 barrel superfamily.<ref name='PMID:18754683 '/>, Genomic context suggested a 2-dehydro-3-deoxy
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Functional assignment of YfaW as a L-rhamnonate dehydratase
Functional assignment of YfaW as a L-rhamnonate dehydratase
suggested 2-dehydro-3-deoxy-L-rhamnonate is the
suggested 2-dehydro-3-deoxy-L-rhamnonate is the
physiological substrate of YfaU, and enzyme kinetic measurements
physiological substrate of RhmA, and enzyme kinetic measurements
support this assignment.
support this assignment.


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!align=left {{table_heading_style}} |Product Synonyms(s)
!align=left {{table_heading_style}} |Product Synonyms(s)
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predicted 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase<ref name='LIB:Riley_2006'/>, B2245<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YfaU<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''predicted 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase<ref name='LIB:Riley_2006'/>, B2245<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RhmA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK2238, JW2239, yfaU, b2245''
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!align=left {{table_heading_style}} |Function from GO
!align=left {{table_heading_style}} |Function from GO
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'''Molecular Function'''
<GO_nr />
* GO:0016832 aldehyde-lyase activity ([http://www.geneontology.org/GO.evidence.shtml IDA])
* GO:0000287 magnesium ion binding ([http://www.geneontology.org/GO.evidence.shtml IPI])
* GO:0016151 nickel ion binding ([http://www.geneontology.org/GO.evidence.shtml IDA])
* GO:0005515 protein binding ([http://www.geneontology.org/GO.evidence.shtml IPI])
'''Biological Process'''
* GO:0006725 cellular aromatic compound metabolic process ([http://www.geneontology.org/GO.evidence.shtml ISS])
'''Cellular Component'''
* GO:0005737 cytoplasm ([http://www.geneontology.org/GO.evidence.shtml IDA])
 
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!align=left {{table_heading_style}} |Knock-Out Phenotype
!align=left {{table_heading_style}} |Knock-Out Phenotype
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!align=left {{table_heading_style}} |Regulation/Expression
!align=left {{table_heading_style}} |Regulation/Expression
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transcription unit(s): [[:Category:Txn_unit:yfaU|yfaU]]<ref name='LIB:EcoCyc10.6'/>  
transcription unit(s): [[:Category:Txn_unit:rhmA|rhmA]]<ref name='LIB:EcoCyc10.6'/>  
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!align=left {{table_heading_style}} |Regulation/Activity
!align=left {{table_heading_style}} |Regulation/Activity
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!align=left {{table_heading_style}} |Quick Links
!align=left {{table_heading_style}} |Quick Links
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[http://ecoliwiki.net/tools/display_dna.php?gene=yfaU&loc=MG1655:2356867..2356064,W3110:2363515..2362712,DH10B:2447855..2447052,REL606:2305358..2304555 DNA display]&nbsp;&nbsp;&nbsp; [http://ecoliwiki.net/tools/display_protein.php?f=NC_000913&start=2305358&end=2304555&gene=yfaU&aa=mnallsnpfkerlrkgevqiglwlssttaymaeiaatsgydwllidgehapntiqdlyhqlqavapyasqpvirpvegskplikqvldigaqtllipmvdtaeqarqvvsatryppygergvgasvaraarwgrienymaqvndslcllvqvesktaldnldeildvegidgvfigpadlsaslgypdnaghpevqriietsirriraagkaagflavapdmaqqclawganfvavgvdtmlysdaldqrlamfksgkngprikgsy Protein display]&nbsp;&nbsp;&nbsp; [http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=Search&Term=yfaU+AND+escherichia+coli Pubmed(yfaU)]&nbsp;&nbsp;&nbsp; [http://trimer.tamu.edu/cgi-bin/textpresso/2.1/ecoli/search?searchstring=yfaU Textpresso(yfaU)]
[[File:porteco.png|link=http://porteco.org/AjaxSearch.jsp?searchString=yfaU&s=search]] [[File:EcoCyc.gif|link=http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G7158]] [[File:regulondb.jpg|link=http://regulondb.ccg.unam.mx/gene?term=ECK120003734&organism=ECK12&format=jsp&type=gene ]] <br/><br/> [[File:dnadisplay.png|link=http://ecoliwiki.net/tools/display_dna.php?gene=yfaU&loc=MG1655%3A2356867..2356064,W3110%3A2363515..2362712,DH10B%3A2447855..2447052,REL606%3A2305358..2304555,BW2952%3A2241869..2242672]] [[File:proteindisplay.png|link=http://ecoliwiki.net/tools/display_protein.php?f=NC_000913&start=2241869&end=2242672&gene=yfaU&aa=mnallsnpfkerlrkgevqiglwlssttaymaeiaatsgydwllidgehapntiqdlyhqlqavapyasqpvirpvegskplikqvldigaqtllipmvdtaeqarqvvsatryppygergvgasvaraarwgrienymaqvndslcllvqvesktaldnldeildvegidgvfigpadlsaslgypdnaghpevqriietsirriraagkaagflavapdmaqqclawganfvavgvdtmlysdaldqrlamfksgkngprikgsy]]&nbsp;&nbsp; [[File:pubmed.jpg|link=http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=Search&Term=yfaU+AND+escherichia+coli]]&nbsp;&nbsp; [[File:textpresso.jpg|link=http://textpresso.tamu.edu/cgi-bin/textpresso/search?q=yfaU]]&nbsp;&nbsp;


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Latest revision as of 21:42, 27 May 2013

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

rhmA

Gene Synonym(s)

ECK2238, b2245, JW2239, yfaU[1], JW2239, yfaU

Product Desc.

predicted aldolase[2][3]. Crystal structure shows that RhmA is a metal-dependent class II aldolase belonging to the pyruvate/enolpyruvate binding (�/R)8 barrel superfamily.[4], Genomic context suggested a 2-dehydro-3-deoxy sugar aldolase function rather than the 4-hydroxy-2-ketoheptane- 1,7-dioate aldolase function as annotated in the databases based on homology with the related HpcH. Functional assignment of YfaW as a L-rhamnonate dehydratase suggested 2-dehydro-3-deoxy-L-rhamnonate is the physiological substrate of RhmA, and enzyme kinetic measurements support this assignment.

Putative HHED aldolase, function unknown[5]

Product Synonyms(s)

predicted 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase[1], B2245[2][1], RhmA[2][1] , ECK2238, JW2239, yfaU, b2245

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): rhmA[2]

Regulation/Activity
Quick Links



        

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Notes

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YfaU is crystallized.[5]



References

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  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. ↑ Rea, D et al. (2008) Crystal structure and functional assignment of YfaU, a metal ion dependent class II aldolase from Escherichia coli K12. Biochemistry 47 9955-65 PubMed
  5. ↑ 5.0 5.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
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