Difference between revisions of "Sandbox"

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* '''Description:''' tRNA-Ser<br/><br/>
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* '''Description:''' deoxyadenosin/deoxycytidine kinase <br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''trnSL-Ser1''
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|''dck''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yaaF ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || transfer RNA-Ser
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|style="background:#ABCDEF;" align="center"| '''Product''' || deoxyadenosin/deoxycytidine kinase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || translation
+
|style="background:#ABCDEF;" align="center"|'''Function''' || purine salvage and interconversion
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Gene length''' || 93 bp
+
|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=BSU00140 dck]
−
|-|-
 
−
 
 
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[serS]]'', ''[[dck]]''
 
 
|-
 
|-
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/trnSL-Ser1_nucleotide.txt    Gene sequence      (+200bp)   ]'''
+
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/purines_salvage_pathways.html Purine salvage], [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Nucleotides (regulation)]'''
−
|style="background:#FAF8CC;" align="center"|'''  '''
 
 
|-
 
|-
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|colspan="2" | '''Genetic context''' <br/> [[Image:trnSL-Ser1_context.gif]]
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 25 kDa, 5.536 
 +
|-
 +
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 651 bp, 217 aa
 +
|-
 +
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trnSL-Ser1]]'', ''[[dgk]]''
 +
|-
 +
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00140 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00140 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00140 DNA_with_flanks]
 +
|-
 +
|colspan="2" | '''Genetic context''' <br/> [[Image:dck_context.gif]]
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 +
|-
 +
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dck_22496_23149_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:dck_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00140]]
 
|-
 
|-
 
|}
 
|}
  
 
__TOC__
 
__TOC__
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
  
−
<br/><br/>
+
<br/><br/><br/><br/><br/><br/>
  
 
= [[Categories]] containing this gene/protein =
 
= [[Categories]] containing this gene/protein =
−
{{SubtiWiki category|[[translation]]}}
+
{{SubtiWiki category|[[biosynthesis/ acquisition of nucleotides]]}}
  
 
= This gene is a member of the following [[regulons]] =
 
= This gene is a member of the following [[regulons]] =
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=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:'''
+
* '''Locus tag:''' BSU00140
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' no entry
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/dgk-dck.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG00010]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10078]
  
 
=== Additional information===
 
=== Additional information===
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''[[SubtInteract|Interactions]]:'''
  
−
* '''Localization:'''
+
* '''[[Localization]]:'''
  
 
=== Database entries ===
 
=== Database entries ===
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* '''Structure:'''
 
* '''Structure:'''
  
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* '''Swiss prot entry:'''
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* '''UniProt:''' [http://www.uniprot.org/uniprot/P37529 P37529]
  
−
* '''KEGG entry:'''
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00140]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
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* '''Operon:'''  
+
* '''Operon:''' ''[[dgk]]-[[dck]]''
 +
 
 +
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dck_22496_23149_-1 dck] {{PubMed|22383849}}
  
 
* '''Sigma factor:'''  
 
* '''Sigma factor:'''  
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* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
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* '''Additional information:'''  
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* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
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=References=
 
=References=
−
 
+
<pubmed>6251049, 11078735 </pubmed>
−
[[Category:Transfer RNA]]
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[[Category:Protein-coding genes]]

Revision as of 14:54, 11 November 2013

  • Description: deoxyadenosin/deoxycytidine kinase

Gene name dck
Synonyms yaaF
Essential no
Product deoxyadenosin/deoxycytidine kinase
Function purine salvage and interconversion
Gene expression levels in SubtiExpress: dck
Metabolic function and regulation of this protein in SubtiPathways:
Purine salvage, Nucleotides (regulation)
MW, pI 25 kDa, 5.536
Gene length, protein length 651 bp, 217 aa
Immediate neighbours trnSL-Ser1, dgk
Sequences Protein DNA DNA_with_flanks
Genetic context
Dck context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
Dck expression.png




























Categories containing this gene/protein

biosynthesis/ acquisition of nucleotides

This gene is a member of the following regulons

The gene

Basic information

  • Locus tag: BSU00140

Phenotypes of a mutant

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:

Database entries

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

Additional information

Expression and regulation

  • Sigma factor:
  • 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

R B Andersen, J Neuhard
Deoxynucleoside kinases encoded by the yaaG and yaaF genes of Bacillus subtilis. Substrate specificity and kinetic analysis of deoxyguanosine kinase with UTP as the preferred phosphate donor.
J Biol Chem: 2001, 276(8);5518-24
[PubMed:11078735] [WorldCat.org] [DOI] (P p)

H Møllgaard
Deoxyadenosine/deoxycytidine kinase from Bacillus subtilis. Purification, characterization, and physiological function.
J Biol Chem: 1980, 255(17);8216-20
[PubMed:6251049] [WorldCat.org] (P p)

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