Difference between revisions of "Sandbox"

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* '''Description:''' tRNA:m1A22 methyl transferase <br/><br/>
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* '''Description:''' tRNA-Ile <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'''
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|''trmK''
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|''trnA-Ile''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yqfN''
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || tRNA:m1A22 methyl transferase
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|style="background:#ABCDEF;" align="center"| '''Product''' || transfer RNA-Ile
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Function''' || tRNA modification
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|style="background:#ABCDEF;" align="center"|'''Function''' || translation
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 5.272 
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|style="background:#ABCDEF;" align="center"| '''Gene length''' || 77 bp
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 648 bp, 216 aa
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rrnA-16S]]'', ''[[trnA-Ala]]''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqfO]]'', ''[[cccA]]''
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/trnA-Ile_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
 
|-
 
|-
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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:CAB14448&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
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|colspan="2" | '''Genetic context''' <br/> [[Image:trnA-Ile_context.gif]]
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|-
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<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
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|colspan="2" | '''Genetic context''' <br/> [[Image:yqfN_context.gif]]
 
 
|-
 
|-
 
|}
 
|}
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__TOC__
 
__TOC__
  
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<br/><br/>
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<br/><br/><br/><br/><br/><br/>
  
 
=The gene=
 
=The gene=
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* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
  
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* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11660]
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* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG00012]
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=== Additional information===
 
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−
 
 
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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:''' phosphorylation on Ser-48 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
 
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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:'''
 
* '''Structure:'''
  
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* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P54471 P54471]
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=== Additional information===
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* '''KEGG entry:'''
 
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* '''E.C. number:'''
 
  
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=== Additional information===
 
  
 
=Expression and regulation=
 
=Expression and regulation=
  
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* '''Operon:'''  
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* '''Operon:''' ''[[rrnA-16S]]-[[trnA-Ile]]-[[trnA-Ala]]-[[rrnA-23S]]-[[rrnA-5S]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/6312418 PubMed]
  
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* '''[[Sigma factor]]:'''  
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* '''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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* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
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* '''GFP fusion:'''
 
  
 
* '''two-hybrid system:'''  
 
* '''two-hybrid system:'''  
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* '''Antibody:'''
 
* '''Antibody:'''
  
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=Labs working on this gene/protein=
+
=Labs working on this gene/RNA=
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
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<pubmed>17218307, </pubmed>
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<pubmed>6312418, </pubmed>
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# Macek et al. (2007) The serine/ threonine/ tyrosine phosphoproteome of the model  bacterium ''Bacillus subtilis''. Mol. Cell. Proteomics 6: 697-707  [http://www.ncbi.nlm.nih.gov/pubmed/17218307 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]
 
# 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 13:39, 8 June 2009

  • Description: tRNA-Ile

Gene name trnA-Ile
Synonyms
Essential no
Product transfer RNA-Ile
Function translation
Gene length 77 bp
Immediate neighbours rrnA-16S, trnA-Ala
Gene sequence (+200bp)
Genetic context
TrnA-Ile context.gif
This image was kindly provided by SubtiList







The gene

Basic information

  • Locus tag:

Phenotypes of a mutant

Database entries

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

Additional information

Expression and regulation

  • Regulation:
  • Regulatory mechanism:
  • Additional information:

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/RNA

Your additional remarks

References

N Ogasawara, S Moriya, H Yoshikawa
Structure and organization of rRNA operons in the region of the replication origin of the Bacillus subtilis chromosome.
Nucleic Acids Res: 1983, 11(18);6301-18
[PubMed:6312418] [WorldCat.org] [DOI] (P p)

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