YukD

• Description: Ubiquitin-like protein, part of the type VII protein secretion system YukD-YukC-YukB-YueB-YueC, putative bacteriocin
  
  

Gene name	yukD
Synonyms
Essential	no
Product	ubiquitin-like protein, part of the type VII protein secretion system, putative bacteriocin
Function	export of YukE
Gene expression levels in SubtiExpress: yukD
MW, pI	8 kDa, 6.311
Gene length, protein length	237 bp, 79 aa
Immediate neighbours	yukC, yukE
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

biosynthesis of antibacterial compounds, protein secretion

This gene is a member of the following regulons

DegU regulon

The gene

Basic information

• Locus tag: BSU31900

Database entries

• BsubCyc: BSU31900

• DBTBS entry: no entry

• SubtiList entry: [1]

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:

Database entries

• BsubCyc: BSU31900

• Structure: 2BPS

• UniProt: P71071

• KEGG entry: [2]

• E.C. number:

Expression and regulation

• Operon: yukE-yukD-yukC-yukB-yueB-yueC PubMed

• Expression browser: yukD PubMed

• Sigma factor: SigA PubMed

• Regulation:
  • not expressed in the lab strain 168, due to lack of DegU-P PubMed
  • expressed in the stationary phase PubMed

• Regulatory mechanism:
  • DegU-P: transcription activation PubMed

• Additional information:

Biological materials

• Mutant:

• Expression vector:

• lacZ fusion:

• GFP fusion:

• two-hybrid system:

• Antibody:

References

Reviews

Roxane Simeone, Daria Bottai, Roland Brosch
ESX/type VII secretion systems and their role in host-pathogen interaction.
Curr Opin Microbiol: 2009, 12(1);4-10
[PubMed:19155186] [WorldCat.org] [DOI] (I p)

Mark J Pallen
The ESAT-6/WXG100 superfamily -- and a new Gram-positive secretion system?
Trends Microbiol: 2002, 10(5);209-12
[PubMed:11973144] [WorldCat.org] [DOI] (P p)

Original publications

Catarina Baptista, Hugo Condessa Barreto, Carlos São-José
High levels of DegU-P activate an Esat-6-like secretion system in Bacillus subtilis.
PLoS One: 2013, 8(7);e67840
[PubMed:23861817] [WorldCat.org] [DOI] (I e)

Pierre Nicolas, Ulrike Mäder, Etienne Dervyn, Tatiana Rochat, Aurélie Leduc, Nathalie Pigeonneau, Elena Bidnenko, Elodie Marchadier, Mark Hoebeke, Stéphane Aymerich, Dörte Becher, Paola Bisicchia, Eric Botella, Olivier Delumeau, Geoff Doherty, Emma L Denham, Mark J Fogg, Vincent Fromion, Anne Goelzer, Annette Hansen, Elisabeth Härtig, Colin R Harwood, Georg Homuth, Hanne Jarmer, Matthieu Jules, Edda Klipp, Ludovic Le Chat, François Lecointe, Peter Lewis, Wolfram Liebermeister, Anika March, Ruben A T Mars, Priyanka Nannapaneni, David Noone, Susanne Pohl, Bernd Rinn, Frank Rügheimer, Praveen K Sappa, Franck Samson, Marc Schaffer, Benno Schwikowski, Leif Steil, Jörg Stülke, Thomas Wiegert, Kevin M Devine, Anthony J Wilkinson, Jan Maarten van Dijl, Michael Hecker, Uwe Völker, Philippe Bessières, Philippe Noirot
Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis.
Science: 2012, 335(6072);1103-6
[PubMed:22383849] [WorldCat.org] [DOI] (I p)

Anne de Jong, Sacha A F T van Hijum, Jetta J E Bijlsma, Jan Kok, Oscar P Kuipers
BAGEL: a web-based bacteriocin genome mining tool.
Nucleic Acids Res: 2006, 34(Web Server issue);W273-9
[PubMed:16845009] [WorldCat.org] [DOI] (I p)

Fusinita van den Ent, Jan Löwe
Crystal structure of the ubiquitin-like protein YukD from Bacillus subtilis.
FEBS Lett: 2005, 579(17);3837-41
[PubMed:15978580] [WorldCat.org] [DOI] (P p)

Carlos São-José, Catarina Baptista, Mário A Santos
Bacillus subtilis operon encoding a membrane receptor for bacteriophage SPP1.
J Bacteriol: 2004, 186(24);8337-46
[PubMed:15576783] [WorldCat.org] [DOI] (P p)