Difference between revisions of "YcdA"

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(Extended information on the protein)
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= This gene is a member of the following [[regulons]] =
 
= This gene is a member of the following [[regulons]] =
 
{{SubtiWiki regulon|[[Abh regulon]]}},
 
{{SubtiWiki regulon|[[Abh regulon]]}},
{{SubtiWiki regulon|[[AbrB regulon]]}}
+
{{SubtiWiki regulon|[[AbrB regulon]]}},
 +
{{SubtiWiki regulon|[[DegU regulon]]}}
  
 
=The gene=
 
=The gene=
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===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
 +
* reduced swarming motility {{PubMed|22496484}}
  
 
=== Database entries ===
 
=== Database entries ===
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* '''[[SubtInteract|Interactions]]:'''
 
* '''[[SubtInteract|Interactions]]:'''
 +
** [[SwrA]]-[[DegU]] (N-terminal domain) {{PubMed|22496484}}
  
* '''[[Localization]]:''' membrane associated [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
+
* '''[[Localization]]:'''  
 +
** lipoprotein {{PubMed|22496484}}
 +
** membrane associated [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
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=Expression and regulation=
 
=Expression and regulation=
  
* '''Operon:''' ''ycdA'' (according to [http://dbtbs.hgc.jp/COG/prom/ycdA.html DBTBS])
+
* '''Operon:''' ''ycdA'' {{PubMed|22496484}}
  
 
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ycdA_299438_300502_-1 ycdA] {{PubMed|22383849}}
 
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ycdA_299438_300502_-1 ycdA] {{PubMed|22383849}}
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* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
 
** [[Abh]] and [[AbrB]]: synergistic transcription repression {{PubMed|20817675}}
 
** [[Abh]] and [[AbrB]]: synergistic transcription repression {{PubMed|20817675}}
 +
** [[DegU]]-P: transcription activation {{PubMed|22496484}}
 +
** [[SwrA]]: modulation of [[DegU]]-P activity at the ''ycdA'' promoter {{PubMed|22496484}}
  
 
* '''Additional information:'''
 
* '''Additional information:'''
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=References=
 
=References=
 
'''Additional publications:''' {{PubMed|20817675}}
 
'''Additional publications:''' {{PubMed|20817675}}
<pubmed>18763711, 20525796 </pubmed>
+
<pubmed>18763711, 20525796 22496484</pubmed>
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 14:37, 13 April 2012

  • Description: lipoprotein, required for swarming motility

Gene name ycdA
Synonyms
Essential no
Product lipoprotein
Function swarming motility
MW, pI 39 kDa, 4.706
Gene length, protein length 1062 bp, 354 aa
Immediate neighbours yccK, ycdB
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
YcdA context.gif
This image was kindly provided by SubtiList




Categories containing this gene/protein

membrane proteins, motility and chemotaxis

This gene is a member of the following regulons

Abh regulon, AbrB regulon, DegU regulon

The gene

Basic information

  • Locus tag: BSU02780

Phenotypes of a mutant

  • reduced swarming motility PubMed

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:

Database entries

  • Structure:
  • KEGG entry: [3]
  • E.C. number:

Additional information

Expression and regulation

  • Sigma factor:
  • Regulation:
  • Additional information:
    • The mRNA has a long 5' leader region. This may indicate RNA-based regulation PubMed

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/protein

Your additional remarks

References

Additional publications: PubMed

Mitsuo Ogura, Kensuke Tsukahara
SwrA regulates assembly of Bacillus subtilis DegU via its interaction with N-terminal domain of DegU.
J Biochem: 2012, 151(6);643-55
[PubMed:22496484] [WorldCat.org] [DOI] (I p)

Irnov Irnov, Cynthia M Sharma, Jörg Vogel, Wade C Winkler
Identification of regulatory RNAs in Bacillus subtilis.
Nucleic Acids Res: 2010, 38(19);6637-51
[PubMed:20525796] [WorldCat.org] [DOI] (I p)

Hannes Hahne, Susanne Wolff, Michael Hecker, Dörte Becher
From complementarity to comprehensiveness--targeting the membrane proteome of growing Bacillus subtilis by divergent approaches.
Proteomics: 2008, 8(19);4123-36
[PubMed:18763711] [WorldCat.org] [DOI] (I p)