Difference between revisions of "Sandbox"

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* '''Description:''' write here <br/><br/>
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* '''Description:''' tRNA-Ile
  
 
{| 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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|''ysdA''
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|''trnO-Ile''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Essential''' || yes
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' ||  
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|style="background:#ABCDEF;" align="center"| '''Product''' || transfer RNA-Ile
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
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|style="background:#ABCDEF;" align="center"|'''Function''' || translation
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 10 kDa, 9.96 
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || kDa,  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 267 bp, 89 aa  
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || bp, aa  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ysdB]]'', ''[[rplT]]''
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rrnO-16S]]'', ''[[trnO-Ala]]''
 
|-
 
|-
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ysdA_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/trnO-Ile_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ysdA_protein.txt Protein sequence]'''
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/trnO-Ile_protein.txt Protein sequence]'''
 
|-
 
|-
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|colspan="2" | '''Genetic context''' <br/> [[Image:ysdA_context.gif]]
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|colspan="2" | '''Genetic context''' <br/> [[Image:trnO-Ile_context.gif]]
 
|-
 
|-
 
|}
 
|}
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=== Database entries ===
 
=== Database entries ===
  
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* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ysdA.html]
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* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rrnO-16S-trnO-Ile-trnO-Ala-rrnO-23S-rrnO-5S.html]
  
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* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12315]
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* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG00006]
  
−
=== Additional information===
+
* '''Structure:'''
−
 
 
−
 
 
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=The protein=
 
−
 
 
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=== Basic information/ Evolution ===
 
−
 
 
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* '''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:'''
 
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* '''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 ===
 
−
 
 
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* '''Structure:'''
 
−
 
 
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* '''Swiss prot entry:'''
 
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* '''KEGG entry:'''
 
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* '''E.C. number:'''
 
  
 
=== Additional information===
 
=== Additional information===
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=Expression and regulation=
 
=Expression and regulation=
  
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* '''Operon:'''  
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* '''Operon:''' ''rrnO'' operon (''[[rrnO-16S]] - [[trnO-Ile]] - [[trnO-Ala]] -[[rrnO-23S]] - [[rrnO-5S]]'') [http://www.ncbi.nlm.nih.gov/sites/entrez/6312418 PubMed]
  
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* '''Sigma factor:'''  
+
* '''Sigma factor:''' SigA [http://www.ncbi.nlm.nih.gov/sites/entrez/6312418 PubMed]
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
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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=
  
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# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
+
# Ogasawara et al. (1983) Structure and organization of rRNA operons in the region of the replication origin of the ''Bacillus subtilis'' chromosome.''Nucl. Acids Res.'' '''11:''' 6301-6318. [http://www.ncbi.nlm.nih.gov/sites/entrez/6312418 PubMed]

Revision as of 11:44, 26 February 2009

  • Description: tRNA-Ile
Gene name trnO-Ile
Synonyms
Essential no
Product transfer RNA-Ile
Function translation
MW, pI kDa,
Gene length, protein length bp, aa
Immediate neighbours rrnO-16S, trnO-Ala
Gene sequence (+200bp) Protein sequence
Genetic context
TrnO-Ile context.gif



The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

Database entries

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

Additional information

Expression and regulation

  • 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. Ogasawara et al. (1983) Structure and organization of rRNA operons in the region of the replication origin of the Bacillus subtilis chromosome.Nucl. Acids Res. 11: 6301-6318. PubMed
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