Difference between revisions of "Sandbox"

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{| align="right" border="1" cellpadding="2"  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|''dnaA''
 
|''dnaA''
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|-  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''dnaH, dnaJ, dnaK ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''dnaH, dnaJ, dnaK ''
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|-  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>
 
|style="background:#ABCDEF;" align="center"| '''Product''' || replication initiation protein
 
|style="background:#ABCDEF;" align="center"| '''Product''' || replication initiation protein
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>
 
|style="background:#ABCDEF;" align="center"|'''Function''' || DNA replication
 
|style="background:#ABCDEF;" align="center"|'''Function''' || DNA replication
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 50 kDa, 6.035   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 50 kDa, 6.035   
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|-
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|-  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>
 
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1338 bp, 446 aa  
 
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1338 bp, 446 aa  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpmH]]'', ''[[dnaN]]''
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpmH]]'', ''[[dnaN]]''
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|-  
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/dnaA_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/dnaA_protein.txt Protein sequence]'''
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-  
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|-
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>goettingen.de/dnaA_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
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|colspan="2" | '''Genetic context''' <br/> [[Image:dnaA_context.gif]]
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>|-
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>goettingen.de/dnaA_protein.txt Protein sequence]'''
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|-  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>
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|colspan="2" | '''Genetic context''' <br/> [[Image:dnaA_-
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>|-
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>
 
|}
 
|}
  
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' [[DnaA]]-[[YabA]]-[[DnaN]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12060778 PubMed], [[DnaA]]-[[DnaD]] [http://www.ncbi.nlm.nih.gov/sites/entrez/11222620 PubMed]
+
* '''Interactions:''' [[DnaA]]-  
 +
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>[[YabA]]-  
 +
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>[[DnaN]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12060778 PubMed], [[DnaA]]-  
 +
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>[[DnaD]] [http://www.ncbi.nlm.nih.gov/sites/entrez/11222620 PubMed]
  
 
* '''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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* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
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* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU00010]
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* '''KEGG entry:''' [http://www.genome.jp/dbget-  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>bin/www_bget?bsu+BSU00010]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
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* '''Operon:''' ''[[dnaA]]-[[dnaN]]''  [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]
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* '''Operon:''' ''[[dnaA]]-  
 +
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>[[dnaN]]''  [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]
  
 
* '''Sigma factor:''' [[SigA]]  [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]
 
* '''Sigma factor:''' [[SigA]]  [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]
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* '''GFP fusion:'''
 
* '''GFP fusion:'''
  
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* '''two-hybrid system:'''  
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* '''two-  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>hybrid system:'''  
  
 
* '''Antibody:'''
 
* '''Antibody:'''
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
−
[[Philippe Noirot]], Jouy-en-Josas, France [http://locus.jouy.inra.fr/cms/index.php?id=18 homepage]
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[[Philippe Noirot]], Jouy-  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>en-  
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<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>Josas, France [http://locus.jouy.inra.fr/cms/index.php?id=18 homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
−
# Imai et al. (2000) Subcellular localization of Dna-initiation proteins of ''Bacillus subtilis'': evidence that chromosome replication begins at either edge of the nucleoids. ''Mol. Microbiol.'' '''36:''' 1037-1048. [http://www.ncbi.nlm.nih.gov/sites/entrez/10844689 PubMed]
+
# Imai et al. (2000) Subcellular localization of Dna-  
−
# Ishigo-Oka et al. (2001) DnaD protein of ''Bacillus subtilis'' interacts with DnaA, the initiator protein of replication. ''J. Bacteriol.'' '''183:''' 2148-2150. [http://www.ncbi.nlm.nih.gov/sites/entrez/11222620 PubMed]
+
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>initiation proteins of ''Bacillus subtilis'': evidence that chromosome replication begins at either edge of the nucleoids. ''Mol. Microbiol.'' '''36:''' 1037-  
−
# Noirot-Gros et al. (2002) An expanded view of bacterial DNA replication. ''Proc. Natl. Acad. Sci. USA'' '''99:''' 8342-8347. [http://www.ncbi.nlm.nih.gov/sites/entrez/12060778 PubMed]
+
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>1048. [http://www.ncbi.nlm.nih.gov/sites/entrez/10844689 PubMed]
−
# Noirot-Gros et al. (2002) Functional dissection of YabA, a negative regulator of DNA replication initiation in Bacillus Title ''Proc. Natl. Acad. Sci. USA'' '''103:''' 2368-2373. [http://www.ncbi.nlm.nih.gov/sites/entrez/16461910 PubMed]
+
# Ishigo-  
−
# Ogasawara et al. (1985) Structure and function of the region of the replication origin of the ''Bacillus subtilis'' chromosome. IV. Transcription of the oriC region and expression of DNA gyrase genes and other open reading frames.''Nucl. Acids Res.'' '''11:''' 2267-2279. [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]
+
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>Oka et al. (2001) DnaD protein of ''Bacillus subtilis'' interacts with DnaA, the initiator protein of replication. ''J. Bacteriol.'' '''183:''' 2148-  
−
# Fukuoka et al.  (1990) Purification and characterization of an initiation protein for chromosomal replication, DnaA, in ''Bacillus subtilis''. ''J. Biochem.'' '''107:''' 732-739. [http://www.ncbi.nlm.nih.gov/sites/entrez/2168872 PubMed]
+
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>2150. [http://www.ncbi.nlm.nih.gov/sites/entrez/11222620 PubMed]
−
# Molle et al. (2003) The Spo0A regulon of ''Bacillus subtilis''.''Mol. Microbiol.'' '''50:''' 1683-1701. [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]
+
# Noirot-  
−
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
+
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>Gros et al. (2002) An expanded view of bacterial DNA replication. ''Proc. Natl. Acad. Sci. USA'' '''99:''' 8342-  
 +
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>8347. [http://www.ncbi.nlm.nih.gov/sites/entrez/12060778 PubMed]
 +
# Noirot-  
 +
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>Gros et al. (2002) Functional dissection of YabA, a negative regulator of DNA replication initiation in Bacillus Title ''Proc. Natl. Acad. Sci. USA'' '''103:''' 2368-  
 +
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>2373. [http://www.ncbi.nlm.nih.gov/sites/entrez/16461910 PubMed]
 +
# Ogasawara et al. (1985) Structure and function of the region of the replication origin of the ''Bacillus subtilis'' chromosome. IV. Transcription of the oriC region and expression of DNA gyrase genes and other open reading frames.''Nucl. Acids Res.'' '''11:''' 2267-  
 +
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>2279. [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]
 +
# Fukuoka et al.  (1990) Purification and characterization of an initiation protein for chromosomal replication, DnaA, in ''Bacillus subtilis''. ''J. Biochem.'' '''107:''' 732-  
 +
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>739. [http://www.ncbi.nlm.nih.gov/sites/entrez/2168872 PubMed]
 +
# Molle et al. (2003) The Spo0A regulon of ''Bacillus subtilis''.''Mol. Microbiol.'' '''50:''' 1683-  
 +
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>1701. [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]
 +
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-  
 +
<div align="right"> <small>the origin of the image is [http://genolist.pasteur.fr/SubtiList/ SubtiList]<small>page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 15:00, 20 March 2009

  • Description: replication initiation protein

the origin of the image is SubtiList
the origin of the image is SubtiList
the origin of the image is SubtiList
the origin of the image is SubtiList
the origin of the image is SubtiList
the origin of the image is SubtiList
the origin of the image is SubtiList
the origin of the image is SubtiList
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Gene name dnaA
Synonyms dnaH, dnaJ, dnaK
Essential yes PubMed
Product replication initiation protein
Function DNA replication
MW, pI 50 kDa, 6.035
Gene length, protein length 1338 bp, 446 aa
Immediate neighbours rpmH, dnaN
[http://subtiwiki.uni-
the origin of the image is SubtiListgoettingen.de/dnaA_nucleotide.txt Gene sequence (+200bp) ]
[http://subtiwiki.uni-
the origin of the image is SubtiListgoettingen.de/dnaA_protein.txt Protein sequence]
Genetic context
[[Image:dnaA_-
the origin of the image is SubtiList|-
the origin of the image is SubtiList



The gene

Basic information

  • Coordinates:

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:
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions: DnaA-
the origin of the image is SubtiListYabA-
the origin of the image is SubtiListDnaN PubMed, DnaA-
the origin of the image is SubtiListDnaD PubMed
  • Localization: throughout the cytoplasm PubMed

Database entries

  • Structure:
  • Swiss prot entry:
the origin of the image is SubtiListbin/www_bget?bsu+BSU00010]
  • E.C. number:

Additional information

Expression and regulation

the origin of the image is SubtiListdnaN PubMed
  • Regulatory mechanism:
  • Additional information:

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-
the origin of the image is SubtiListhybrid system:
  • Antibody:

Labs working on this gene/protein

Philippe Noirot, Jouy-

the origin of the image is SubtiListen-
the origin of the image is SubtiListJosas, France homepage

Your additional remarks

References

  1. Imai et al. (2000) Subcellular localization of Dna-
the origin of the image is SubtiListinitiation proteins of Bacillus subtilis: evidence that chromosome replication begins at either edge of the nucleoids. Mol. Microbiol. 36: 1037-
the origin of the image is SubtiList1048. PubMed
  1. Ishigo-
the origin of the image is SubtiListOka et al. (2001) DnaD protein of Bacillus subtilis interacts with DnaA, the initiator protein of replication. J. Bacteriol. 183: 2148-
the origin of the image is SubtiList2150. PubMed
  1. Noirot-
the origin of the image is SubtiListGros et al. (2002) An expanded view of bacterial DNA replication. Proc. Natl. Acad. Sci. USA 99: 8342-
the origin of the image is SubtiList8347. PubMed
  1. Noirot-
the origin of the image is SubtiListGros et al. (2002) Functional dissection of YabA, a negative regulator of DNA replication initiation in Bacillus Title Proc. Natl. Acad. Sci. USA 103: 2368-
the origin of the image is SubtiList2373. PubMed
  1. Ogasawara et al. (1985) Structure and function of the region of the replication origin of the Bacillus subtilis chromosome. IV. Transcription of the oriC region and expression of DNA gyrase genes and other open reading frames.Nucl. Acids Res. 11: 2267-
the origin of the image is SubtiList2279. PubMed
  1. Fukuoka et al. (1990) Purification and characterization of an initiation protein for chromosomal replication, DnaA, in Bacillus subtilis. J. Biochem. 107: 732-
the origin of the image is SubtiList739. PubMed
  1. Molle et al. (2003) The Spo0A regulon of Bacillus subtilis.Mol. Microbiol. 50: 1683-
the origin of the image is SubtiList1701. PubMed
  1. Author1, Author2 & Author3 (year) Title Journal volume: page-
the origin of the image is SubtiListpage. PubMed