def:Quickview: Difference between revisions

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!align=left |Standard Name
!align=left {{table_heading_style}} |Standard Name
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''def''  
''def''  
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!align=left |Gene Synonym(s)
!align=left {{table_heading_style}} |Gene Synonym(s)
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''ECK3273, b3287, JW3248, fms''<ref name='LIB:Riley_2006'/>
''ECK3273, b3287, JW3248, fms''<ref name='LIB:Riley_2006'/>
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!align=left |Product Desc.
!align=left {{table_heading_style}} |Product Desc.
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peptide deformylase<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
peptide deformylase<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
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Peptide deformylase; N-formylmethionylaminoacyl-tRNA deformylase<ref name='LIB:EcoGene'/>
Peptide deformylase; N-formylmethionylaminoacyl-tRNA deformylase<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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peptide deformylase<ref name='LIB:Riley_2006'/>, B3287<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Fms<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Def<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
peptide deformylase<ref name='LIB:Riley_2006'/>, B3287<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Fms<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Def<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])
* GO:0008198 ferrous iron binding ([http://www.geneontology.org/GO.evidence.shtml IDA])
* GO:0042586 peptide deformylase activity ([http://www.geneontology.org/GO.evidence.shtml IDA])
* GO:0008270 zinc ion binding ([http://www.geneontology.org/GO.evidence.shtml IDA])
* GO:0016787 hydrolase activity ([http://www.geneontology.org/GO.evidence.shtml IDA])
'''Biological Process'''
* GO:0031365 N-terminal protein amino acid modification ([http://www.geneontology.org/GO.evidence.shtml IDA])
* GO:0043686 co-translational protein modification ([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:def-fmt|def-fmt]]<ref name='LIB:EcoCyc10.6'/>  
transcription unit(s): [[:Category:Txn_unit:def-fmt|def-fmt]]<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=def&loc=MG1655:3431712..3432221,W3110:4206726..4206217,DH10B:3529457..3529966,REL606:3361595..3362104 DNA display]&nbsp;&nbsp;&nbsp; [http://ecoliwiki.net/tools/display_protein.php?f=NC_000913&start=3361595&end=3362104&gene=def&aa=msvlqvlhipderlrkvakpveevnaeiqrivddmfetmyaeegiglaatqvdihqriividvsenrderlvlinpelleksgetgieegclsipeqralvpraekvkiraldrdgkpfeleadgllaiciqhemdhlvgklfmdylsplkqqrirqkvekldrlkara Protein display]&nbsp;&nbsp;&nbsp; [http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=Search&Term=def+AND+escherichia+coli Pubmed(def)]&nbsp;&nbsp;&nbsp; [http://trimer.tamu.edu/cgi-bin/textpresso/2.1/ecoli/search?searchstring=def Textpresso(def)]


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Revision as of 00:04, 22 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

def

Gene Synonym(s)

ECK3273, b3287, JW3248, fms[1]

Product Desc.

peptide deformylase[2][3]

Peptide deformylase; N-formylmethionylaminoacyl-tRNA deformylase[4]

Product Synonyms(s)

peptide deformylase[1], B3287[2][1], Fms[2][1], Def[2][1]

Function from GO

Molecular Function

Biological Process

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): def-fmt[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(def)    Textpresso(def)

edit table

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

Notes

[back to top]


The def gene is essential unless the fmt formylase gene is also inactivated. Fe (II) is the metal co-factor in vivo (Rajagopalan et al., J. Am. Chem. Soc.,119:12418, 1997). Def was originally thought to be a zinc enzyme.[4]



References

[back to top]


  1. ↑ 1.0 1.1 1.2 1.3 1.4 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 2.4 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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