YcdA

• Description: lipoprotein, required for swarming motility
  
  

Gene name	ycdA
Synonyms
Essential	no
Product	lipoprotein
Function	swarming motility
Gene expression levels in SubtiExpress: ycdA
MW, pI	39 kDa, 4.706
Gene length, protein length	1062 bp, 354 aa
Immediate neighbours	yccK, ycdB
Sequences	Protein DNA DNA_with_flanks
Genetic context This image was kindly provided by SubtiList
Expression at a glance   PubMed

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

• BsubCyc: BSU02780

• DBTBS entry: [1]

• SubtiList entry: [2]

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:

• Interactions:

• Localization:
  • lipoprotein PubMed
  • membrane associated PubMed

Database entries

• BsubCyc: BSU02780

• Structure:

• UniProt: O34538

• KEGG entry: [3]

• E.C. number:

Expression and regulation

• Operon: ycdA PubMed

• Expression browser: ycdA PubMed

• Sigma factor:

• Regulation:

• Regulatory mechanism:
  • Abh and AbrB: synergistic transcription repression PubMed
  • DegU-P: transcription activation PubMed
  • SwrA: modulation of DegU-P activity at the ycdA promoter PubMed

• Additional information:
  • The mRNA has a long 5' leader region. This may indicate RNA-based regulation PubMed
  • number of protein molecules per cell (minimal medium with glucose and ammonium): 173 PubMed
  • number of protein molecules per cell (complex medium with amino acids, without glucose): 2289 PubMed

Biological materials

• Mutant:

• Expression vector:

• lacZ fusion:

• GFP fusion:

• two-hybrid system:

• Antibody:

References

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)

Onuma Chumsakul, Hiroki Takahashi, Taku Oshima, Takahiro Hishimoto, Shigehiko Kanaya, Naotake Ogasawara, Shu Ishikawa
Genome-wide binding profiles of the Bacillus subtilis transition state regulator AbrB and its homolog Abh reveals their interactive role in transcriptional regulation.
Nucleic Acids Res: 2011, 39(2);414-28
[PubMed:20817675] [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)