Difference between revisions of "Sandbox"

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|-
 
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|style="background:#ABCDEF;" align="center"|'''Function''' || [[DNA replication]]
 
|style="background:#ABCDEF;" align="center"|'''Function''' || [[DNA replication]]
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|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU00010 BSU00010]
 
 
|-
 
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|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU00010 BSU00010]
 
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU00010 BSU00010]
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* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
 +
** binds multiple regions in the oriC region, required for recruitment of proteins needed to load the replicative helicase [[DnaC]]
  
 
* '''Protein family:''' dnaA family (according to Swiss-Prot)
 
* '''Protein family:''' dnaA family (according to Swiss-Prot)
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** [[YabA]] inhibits co-operative binding of DnaA to the ''oriC'' DNA {{PubMed|21895792}}
 
** [[YabA]] inhibits co-operative binding of DnaA to the ''oriC'' DNA {{PubMed|21895792}}
 
** DnaA helix formation (and thus replication initiation) is inhibited by the interaction of [[Soj]] with the AAA+ domain of DnaA {{PubMed|22286949}}  
 
** DnaA helix formation (and thus replication initiation) is inhibited by the interaction of [[Soj]] with the AAA+ domain of DnaA {{PubMed|22286949}}  
 +
** interaction with [[DnaD]] inhibits the ability of [[DnaA]] to cooperatively bind to DNA {{PubMed|22821970}}
  
 
* '''[[SubtInteract|Interactions]]:'''
 
* '''[[SubtInteract|Interactions]]:'''
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** [[Soj]]-[[DnaA]] {{PubMed|22286949}}  
 
** [[Soj]]-[[DnaA]] {{PubMed|22286949}}  
 
** [[DnaA]]-[[YabA]],  [[DnaA]]-[[YabA]]-[[DnaN]] {{PubMed|12060778}}  
 
** [[DnaA]]-[[YabA]],  [[DnaA]]-[[YabA]]-[[DnaN]] {{PubMed|12060778}}  
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** [[DnaA]]-[[DnaD]] [http://www.ncbi.nlm.nih.gov/sites/entrez/11222620 PubMed]
+
** [[DnaA]]-[[DnaD]] {{PubMed|22821970,11222620}}
 
** [[SirA]]-[[DnaA]] {{PubMed|19682252,21239581}}
 
** [[SirA]]-[[DnaA]] {{PubMed|19682252,21239581}}
 
** [[YqaH]]-[[DnaA]] {{PubMed|12060778}}  
 
** [[YqaH]]-[[DnaA]] {{PubMed|12060778}}  
 +
** part of the [[primosome]]: [[DnaA]]-[[DnaG]]-[[DnaC]]-[[DnaI]]-[[DnaD]]-[[DnaB]] {{PubMed|22797751}}
  
 
* '''[[Localization]]:''' throughout the cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/10844689 PubMed]
 
* '''[[Localization]]:''' throughout the cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/10844689 PubMed]
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=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
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[[Philippe Noirot]], Jouy-en-Josas, France [http://locus.jouy.inra.fr/cms/index.php?id=18 homepage]
+
* [[Philippe Noirot]], Jouy-en-Josas, France [http://locus.jouy.inra.fr/cms/index.php?id=18 homepage]
−
 
+
* [[Peter Graumann]], Freiburg University, Germany [http://www.biologie.uni-freiburg.de/data/bio2/graumann/index.htm homepage]
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[[Peter Graumann]], Freiburg University, Germany [http://www.biologie.uni-freiburg.de/data/bio2/graumann/index.htm homepage]
+
* [[Alan Grossman]], MIT, Cambridge, MA, USA
−
 
 
−
[[Alan Grossman]], MIT, Cambridge, MA, USA
 
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
 
==Reviews==
 
==Reviews==
−
<pubmed> 20157337 21035377 21639790</pubmed>
+
<pubmed> 20157337 21035377 21639790 22575476 22797751</pubmed>
 +
 
 
==The [[DnaA regulon]]==
 
==The [[DnaA regulon]]==
 
<pubmed> 16120674, </pubmed>
 
<pubmed> 16120674, </pubmed>
 
==Original publications==
 
==Original publications==
 
'''Additional publications:''' {{PubMed|22396664,21911367}}  
 
'''Additional publications:''' {{PubMed|22396664,21911367}}  
−
<pubmed>18854156,19011033, 11222620,14651647,17140409 10844689 ,11222620 12060778 16461910 2987848 2168872 11207367, 19737352 19081080 17932079 19968790 19682252 20511500 21097613 21239581 21895792 22286949</pubmed>
+
<pubmed>18854156,19011033, 11222620,14651647,17140409 10844689 ,11222620 12060778 16461910 2987848 2168872 11207367, 19737352 19081080 17932079 19968790 19682252 20511500 21097613 21239581 21895792 22286949 22821970</pubmed>
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 13:51, 6 August 2012


Gene name dnaA
Synonyms dnaH, dnaJ, dnaK
Essential yes PubMed
Product replication initiation protein
Function DNA replication
Gene expression levels in SubtiExpress: BSU00010
Interactions involving this protein in SubtInteract: DnaA
MW, pI 50 kDa, 6.035
Gene length, protein length 1338 bp, 446 aa
Immediate neighbours rpmH, dnaN
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
DnaA dnaN yaaA recF yaaB gyrB context.png
This image was kindly provided by SubtiList
Expression at a glance   PubMed
DnaA expression.png















Categories containing this gene/protein

DNA replication, essential genes

This gene is a member of the following regulons

Spo0A regulon

The DnaA regulon

The gene

Basic information

  • Locus tag: BSU00010

Phenotypes of a mutant

essential PubMed

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
    • binds multiple regions in the oriC region, required for recruitment of proteins needed to load the replicative helicase DnaC
  • Protein family: dnaA family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains: AAA+ domain
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
    • SirA displaces DnaA from the replication origin PubMed
    • YabA inhibits co-operative binding of DnaA to the oriC DNA PubMed
    • DnaA helix formation (and thus replication initiation) is inhibited by the interaction of Soj with the AAA+ domain of DnaA PubMed
    • interaction with DnaD inhibits the ability of DnaA to cooperatively bind to DNA PubMed

Database entries

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

Additional information

Expression and regulation

  • Regulatory mechanism:
  • Additional information:

Biological materials

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

Labs working on this gene/protein

Your additional remarks

References

Reviews

Geoffrey S Briggs, Wiep Klaas Smits, Panos Soultanas
Chromosomal replication initiation machinery of low-G+C-content Firmicutes.
J Bacteriol: 2012, 194(19);5162-70
[PubMed:22797751] [WorldCat.org] [DOI] (I p)

An-Chun Chien, Norbert S Hill, Petra Anne Levin
Cell size control in bacteria.
Curr Biol: 2012, 22(9);R340-9
[PubMed:22575476] [WorldCat.org] [DOI] (I p)

Alan C Leonard, Julia E Grimwade
Regulation of DnaA assembly and activity: taking directions from the genome.
Annu Rev Microbiol: 2011, 65;19-35
[PubMed:21639790] [WorldCat.org] [DOI] (I p)

Alan C Leonard, Julia E Grimwade
Regulating DnaA complex assembly: it is time to fill the gaps.
Curr Opin Microbiol: 2010, 13(6);766-72
[PubMed:21035377] [WorldCat.org] [DOI] (I p)

Tsutomu Katayama, Shogo Ozaki, Kenji Keyamura, Kazuyuki Fujimitsu
Regulation of the replication cycle: conserved and diverse regulatory systems for DnaA and oriC.
Nat Rev Microbiol: 2010, 8(3);163-70
[PubMed:20157337] [WorldCat.org] [DOI] (I p)


The DnaA regulon

Alexi I Goranov, Luba Katz, Adam M Breier, Christopher B Burge, Alan D Grossman
A transcriptional response to replication status mediated by the conserved bacterial replication protein DnaA.
Proc Natl Acad Sci U S A: 2005, 102(36);12932-7
[PubMed:16120674] [WorldCat.org] [DOI] (P p)

Original publications

Additional publications: PubMed

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