Difference between revisions of "DnaD"

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(Expression and regulation)
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|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU22350 dnaD]
 
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU22350 dnaD]
 
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|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/DnaD DnaD]
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|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=DnaD DnaD]
 
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 7.174   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 7.174   

Revision as of 08:42, 12 November 2013

  • Description: initiation of chromosome replication, part of the replisome

Gene name dnaD
Synonyms
Essential yes PubMed
Product initiation of chromosome replication
Function DNA replication
Gene expression levels in SubtiExpress: dnaD
Interactions involving this protein in SubtInteract: DnaD
MW, pI 27 kDa, 7.174
Gene length, protein length 696 bp, 232 aa
Immediate neighbours nth, asnS
Sequences Protein DNA DNA_with_flanks
Genetic context
DnaD context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
DnaD expression.png














Categories containing this gene/protein

DNA replication, essential genes

This gene is a member of the following regulons

The gene

Basic information

  • Locus tag: BSU22350

Phenotypes of a mutant

essential PubMed

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
    • DnaD-mediated untwisting of the DNA stimulates Nth endonuclease activity at AP sites PubMed
    • required for the assembly of the replicative helicase DnaC at the origin of replication PubMed
    • interaction with DnaA inhibits the ability of DnaA to bind cooperatively to DNA PubMed
  • Protein family: DNA polymerase type-Y family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

  • Structure: 2C79 (N-terminal domain)
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Regulation:
    • constitutively expressed PubMed
    • there are about 3,000 to 5,000 molecules of DnaD per cell PubMed
    • expression is transiently increased after treatment with H2O2 PubMed
  • 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)

Original publications

Carla Y Bonilla, Alan D Grossman
The primosomal protein DnaD inhibits cooperative DNA binding by the replication initiator DnaA in Bacillus subtilis.
J Bacteriol: 2012, 194(18);5110-7
[PubMed:22821970] [WorldCat.org] [DOI] (I p)

Christopher Collier, Cristina Machón, Geoff S Briggs, Wiep Klaas Smits, Panos Soultanas
Untwisting of the DNA helix stimulates the endonuclease activity of Bacillus subtilis Nth at AP sites.
Nucleic Acids Res: 2012, 40(2);739-50
[PubMed:21954439] [WorldCat.org] [DOI] (I p)

Wiep Klaas Smits, Houra Merrikh, Carla Yaneth Bonilla, Alan D Grossman
Primosomal proteins DnaD and DnaB are recruited to chromosomal regions bound by DnaA in Bacillus subtilis.
J Bacteriol: 2011, 193(3);640-8
[PubMed:21097613] [WorldCat.org] [DOI] (I p)

Farhat Y Marston, William H Grainger, Wiep Klaas Smits, Nicholas H Hopcroft, Matthew Green, Andrea M Hounslow, Alan D Grossman, C Jeremy Craven, Panos Soultanas
When simple sequence comparison fails: the cryptic case of the shared domains of the bacterial replication initiation proteins DnaB and DnaD.
Nucleic Acids Res: 2010, 38(20);6930-42
[PubMed:20587500] [WorldCat.org] [DOI] (I p)

Glenn M Sanders, H Garry Dallmann, Charles S McHenry
Reconstitution of the B. subtilis replisome with 13 proteins including two distinct replicases.
Mol Cell: 2010, 37(2);273-81
[PubMed:20122408] [WorldCat.org] [DOI] (I p)

Wiep Klaas Smits, Alexi I Goranov, Alan D Grossman
Ordered association of helicase loader proteins with the Bacillus subtilis origin of replication in vivo.
Mol Microbiol: 2010, 75(2);452-61
[PubMed:19968790] [WorldCat.org] [DOI] (I p)

Megan E Rokop, Alan D Grossman
Intragenic and extragenic suppressors of temperature sensitive mutations in the replication initiation genes dnaD and dnaB of Bacillus subtilis.
PLoS One: 2009, 4(8);e6774
[PubMed:19707554] [WorldCat.org] [DOI] (I e)

Jean-Christophe Meile, Ling Juan Wu, S Dusko Ehrlich, Jeff Errington, Philippe Noirot
Systematic localisation of proteins fused to the green fluorescent protein in Bacillus subtilis: identification of new proteins at the DNA replication factory.
Proteomics: 2006, 6(7);2135-46
[PubMed:16479537] [WorldCat.org] [DOI] (P p)

Claude Bruand, Marion Velten, Stephen McGovern, Stéphanie Marsin, Céline Sérèna, S Dusko Ehrlich, Patrice Polard
Functional interplay between the Bacillus subtilis DnaD and DnaB proteins essential for initiation and re-initiation of DNA replication.
Mol Microbiol: 2005, 55(4);1138-50
[PubMed:15686560] [WorldCat.org] [DOI] (P p)

Megan E Rokop, Jennifer M Auchtung, Alan D Grossman
Control of DNA replication initiation by recruitment of an essential initiation protein to the membrane of Bacillus subtilis.
Mol Microbiol: 2004, 52(6);1757-67
[PubMed:15186423] [WorldCat.org] [DOI] (P p)

C Bruand, M Farache, S McGovern, S D Ehrlich, P Polard
DnaB, DnaD and DnaI proteins are components of the Bacillus subtilis replication restart primosome.
Mol Microbiol: 2001, 42(1);245-55
[PubMed:11679082] [WorldCat.org] [DOI] (P p)

S Marsin, S McGovern, S D Ehrlich, C Bruand, P Polard
Early steps of Bacillus subtilis primosome assembly.
J Biol Chem: 2001, 276(49);45818-25
[PubMed:11585815] [WorldCat.org] [DOI] (P p)

D Ishigo-Oka, N Ogasawara, S Moriya
DnaD protein of Bacillus subtilis interacts with DnaA, the initiator protein of replication.
J Bacteriol: 2001, 183(6);2148-50
[PubMed:11222620] [WorldCat.org] [DOI] (P p)