Difference between revisions of "Sandbox"

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* '''Description:''' aliphatic sulfonate monooxygenase <br/><br/>
+
* '''Description:''' tRNA-Ala
  
 
{| 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'''
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|''ssuD''
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|''trnI-Ala''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ygcA, yzeC ''
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''trnH ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || aliphatic sulfonate monooxygenase
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|style="background:#ABCDEF;" align="center"| '''Product''' || transfer RNA-Ala
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Function''' || sulfonate reduction
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|style="background:#ABCDEF;" align="center"|'''Function''' || translation
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 41 kDa, 5.369 
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|style="background:#ABCDEF;" align="center"| '''Gene length''' || 76 bp
 +
|-|-
 +
 
 +
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trnI-Pro]]'', ''[[rrnH-16S]]''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1128 bp, 376 aa
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/trnI-Ala_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
 +
|style="background:#FAF8CC;" align="center"|'''  '''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ssuC]]'', ''[[ygaN]]''
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|colspan="2" | '''Genetic context''' <br/> [[Image:trnI-Ala_context.gif]]
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|-
 
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|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12714&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
−
|-
 
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|colspan="2" | '''Genetic context''' <br/> [[Image:ssuD_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>
 
|-
 
|-
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<br/><br/>
 
<br/><br/>
  
 +
<br/><br/><br/><br/><br/>
 
=The gene=
 
=The gene=
  
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=== Database entries ===
 
=== Database entries ===
  
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* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ssuBACD-ygaN.html]
+
* '''DBTBS entry:''' no entry
  
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* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10658]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG00043]
 +
 +
* '''Structure:'''
  
 
=== Additional information===
 
=== Additional information===
  
  
−
=The protein=
+
 
−
 
 
−
=== Basic information/ Evolution ===
 
−
 
 
−
* '''Catalyzed reaction/ biological activity:'''
 
−
 
 
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* '''Protein family:'''
 
−
 
 
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* '''Paralogous protein(s):'''
 
−
 
 
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=== Extended information on the protein ===
 
−
 
 
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* '''Kinetic information:'''
 
−
 
 
−
* '''Domains:'''
 
−
 
 
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* '''Modification:'''
 
−
 
 
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* '''Cofactor(s):'''
 
−
 
 
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* '''Effectors of protein activity:'''
 
−
 
 
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* '''Interactions:'''
 
−
 
 
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* '''Localization:'''
 
−
 
 
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=== Database entries ===
 
−
 
 
−
* '''Structure:'''
 
−
 
 
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* '''Swiss prot entry:'''
 
−
 
 
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* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU08860]
 
−
 
 
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* '''E.C. number:'''
 
−
 
 
−
=== Additional information===
 
  
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[ssuB]]-[[ssuA]]-[[ssuC]]-[[ssuD]]-[[ygaN]]''
+
* '''Operon:'''  
  
−
* '''[[Sigma factor]]:''' [[SigA]]
+
* '''Sigma factor:'''  
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
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* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
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* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
Line 118: Line 85:
 
=References=
 
=References=
  
−
# van der Ploeg JR, Cummings NJ, Leisinger T, Connerton IF. (1998) Bacillus subtilis genes for the utilization of sulfur from aliphatic sulfonates. ''Microbiology'' '''Sep;144(Pt9):''' 2555-61.  [http://www.ncbi.nlm.nih.gov/sites/entrez/9782504 PubMed]
 
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 16:38, 25 April 2009

  • Description: tRNA-Ala
Gene name trnI-Ala
Synonyms trnH
Essential no
Product transfer RNA-Ala
Function translation
Gene length 76 bp
Immediate neighbours trnI-Pro, rrnH-16S
Gene sequence (+200bp)
Genetic context
TrnI-Ala context.gif
This image was kindly provided by SubtiList








The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

Database entries

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

Additional information

Expression and regulation

  • Operon:
  • 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

  1. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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