Difference between revisions of "LigD"

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(Original publications)
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* sensitivity to ionizing radiation in the stationary phase  {{PubMed|12215643}}
 
* sensitivity to ionizing radiation in the stationary phase  {{PubMed|12215643}}
 
* sensitivity of spores to several DNA-damaging treatments known to cause double strand breaks, such as UV-ray, X-ray, ultrahigh vacuum and wet heat {{PubMed|16497325,17293412}}
 
* sensitivity of spores to several DNA-damaging treatments known to cause double strand breaks, such as UV-ray, X-ray, ultrahigh vacuum and wet heat {{PubMed|16497325,17293412}}
 +
* a ''[[ligD]]-[[ykoV]]'' double mutant is sensitive to radiation {{PubMed|24123749}}
 +
 
=== Database entries ===
 
=== Database entries ===
  
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=== Additional information===
 
=== Additional information===
 
 
  
  
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* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
* '''Domains:'''  N-terminal DNA ligase catalytic domain (aa 1 - 331) linked to a C-terminal polymerase domain (aa 332 - 611) {{PubMed|23691176}}
+
* '''[[Domains]]:'''   
 +
** N-terminal DNA ligase catalytic domain (aa 1 - 331) linked to a C-terminal polymerase domain (aa 332 - 611) {{PubMed|23691176}}
  
 
* '''Modification:'''
 
* '''Modification:'''
  
* '''Cofactor(s):'''
+
* '''[[Cofactors]]:'''
  
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
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== Original publications ==
 
== Original publications ==
<pubmed>16497325, 23691176, 12215643 11075926 11566200 17293412 24123749 </pubmed>
+
<pubmed>16497325, 23691176, 12215643 11075926 11566200 17293412 24123749 24123749</pubmed>
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 16:30, 20 December 2013

  • Description: DNA repair polymerase/ ligase in non-homologous end joining DNA repair

Gene name ligD
Synonyms ykoU
Essential no
Product DNA repair polymerase/ ligase
Function non-homologous end joining DNA repair, repair of gapped DNA substrates
Gene expression levels in SubtiExpress: ligD
Interactions involving this protein in SubtInteract: LigD
MW, pI 70 kDa, 6.646
Gene length, protein length 1833 bp, 611 aa
Immediate neighbours ykoT, ykoV
Sequences Protein DNA DNA_with_flanks
Genetic context
YkoU context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
YkoU expression.png















Categories containing this gene/protein

DNA repair/ recombination, sporulation proteins

This gene is a member of the following regulons

SigG regulon, SpoVT regulon


The gene

Basic information

  • Locus tag: BSU13400

Phenotypes of a mutant

  • sensitivity to ionizing radiation in the stationary phase PubMed
  • sensitivity of spores to several DNA-damaging treatments known to cause double strand breaks, such as UV-ray, X-ray, ultrahigh vacuum and wet heat PubMed
  • a ligD-ykoV double mutant is sensitive to radiation PubMed

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]

Additional information

The protein

Basic information/ Evolution

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

Extended information on the protein

  • Kinetic information:
  • Domains:
    • N-terminal DNA ligase catalytic domain (aa 1 - 331) linked to a C-terminal polymerase domain (aa 332 - 611) PubMed
  • Modification:
  • Effectors of protein activity:

Database entries

  • Structure:
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Regulatory mechanism:
  • Additional information:

Biological materials

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

Labs working on this gene/protein

Your additional remarks

References

Reviews

Justin S Lenhart, Jeremy W Schroeder, Brian W Walsh, Lyle A Simmons
DNA repair and genome maintenance in Bacillus subtilis.
Microbiol Mol Biol Rev: 2012, 76(3);530-64
[PubMed:22933559] [WorldCat.org] [DOI] (I p)

Stewart Shuman, Michael S Glickman
Bacterial DNA repair by non-homologous end joining.
Nat Rev Microbiol: 2007, 5(11);852-61
[PubMed:17938628] [WorldCat.org] [DOI] (I p)


Original publications

Ralf Moeller, Marina Raguse, Günther Reitz, Ryuichi Okayasu, Zuofeng Li, Stuart Klein, Peter Setlow, Wayne L Nicholson
Resistance of Bacillus subtilis spore DNA to lethal ionizing radiation damage relies primarily on spore core components and DNA repair, with minor effects of oxygen radical detoxification.
Appl Environ Microbiol: 2014, 80(1);104-9
[PubMed:24123749] [WorldCat.org] [DOI] (I p)

Miguel de Vega
The minimal Bacillus subtilis nonhomologous end joining repair machinery.
PLoS One: 2013, 8(5);e64232
[PubMed:23691176] [WorldCat.org] [DOI] (I e)

Ralf Moeller, Erko Stackebrandt, Günther Reitz, Thomas Berger, Petra Rettberg, Aidan J Doherty, Gerda Horneck, Wayne L Nicholson
Role of DNA repair by nonhomologous-end joining in Bacillus subtilis spore resistance to extreme dryness, mono- and polychromatic UV, and ionizing radiation.
J Bacteriol: 2007, 189(8);3306-11
[PubMed:17293412] [WorldCat.org] [DOI] (P p)

Stephanie T Wang, Barbara Setlow, Erin M Conlon, Jessica L Lyon, Daisuke Imamura, Tsutomu Sato, Peter Setlow, Richard Losick, Patrick Eichenberger
The forespore line of gene expression in Bacillus subtilis.
J Mol Biol: 2006, 358(1);16-37
[PubMed:16497325] [WorldCat.org] [DOI] (P p)

Geoffrey R Weller, Boris Kysela, Rajat Roy, Louise M Tonkin, Elizabeth Scanlan, Marina Della, Susanne Krogh Devine, Jonathan P Day, Adam Wilkinson, Fabrizio d'Adda di Fagagna, Kevin M Devine, Richard P Bowater, Penny A Jeggo, Stephen P Jackson, Aidan J Doherty
Identification of a DNA nonhomologous end-joining complex in bacteria.
Science: 2002, 297(5587);1686-9
[PubMed:12215643] [WorldCat.org] [DOI] (I p)

G R Weller, A J Doherty
A family of DNA repair ligases in bacteria?
FEBS Lett: 2001, 505(2);340-2
[PubMed:11566200] [WorldCat.org] [DOI] (P p)

E V Koonin, Y I Wolf, A S Kondrashov, L Aravind
Bacterial homologs of the small subunit of eukaryotic DNA primase.
J Mol Microbiol Biotechnol: 2000, 2(4);509-12
[PubMed:11075926] [WorldCat.org] (P p)