Difference between revisions of "Easter egg"

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−
* '''Description:''' 6S RNA<br/><br/>
+
* '''Description:''' tmRNA<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'''
−
|''bsrB''
+
|''ssrA''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || 6S RNA
+
|style="background:#ABCDEF;" align="center"| '''Product''' || tmRNA
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || antagonist of [[SigA]]
+
|style="background:#ABCDEF;" align="center"|'''Function''' || trans-translation
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length''' ||  203 bp
+
 
 +
|style="background:#ABCDEF;" align="center"| '''Gene length''' ||  bp
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yocI]]'', ''[[azoR1]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yvaG]]'', ''[[smpB]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE.txt    Gene sequence      (+200bp)  ]'''  
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ssrA_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:BsrB_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:ssrA_context.gif]]
 +
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
|-
 
|-
 
|}
 
|}
Line 26: Line 28:
 
__TOC__
 
__TOC__
  
−
<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|[[sigma factors and their control]]}},
+
{{SubtiWiki category|[[translation]]}},
 
{{SubtiWiki category|[[ncRNA]]}}
 
{{SubtiWiki category|[[ncRNA]]}}
  
Line 46: Line 47:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/bsrB.html]
+
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' no entry
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG00097]
−
+
 
−
* '''Structure:'''  
+
* '''Structure:'''
  
 
=== Additional information===
 
=== Additional information===
−
 
  
  
Line 59: Line 59:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''bsrB'' [http://www.ncbi.nlm.nih.gov/sites/entrez/11886746 PubMed]
+
* '''Operon:'''  
  
−
* '''Sigma factor:'''  
+
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:''' expressed during vegetative growth[http://www.ncbi.nlm.nih.gov/sites/entrez/11886746 PubMed]
+
* '''Regulation:'''  
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
Line 71: Line 71:
 
=Biological materials =
 
=Biological materials =
  
−
* '''Mutant:'''
+
* '''Mutant:''' GP323 (cat), available in the [[Stülke]] lab
  
 
* '''Expression vector:'''
 
* '''Expression vector:'''
Line 77: Line 77:
 
* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
  
 +
* '''GFP fusion:'''
 +
 +
* '''two-hybrid system:'''
 +
 +
* '''Antibody:'''
  
 
=Labs working on this gene/RNA=
 
=Labs working on this gene/RNA=
  
−
* Kouji Nakamura, Tsukuba, University, Japan
+
* [[Chet Price]], Davis, USA [http://foodscience.ucdavis.edu/price_lab/pricelab.html homepage]
−
* [[Roland Hartmann]], Philipps-Universität Marburg, Marburg, Germany, [http://www.uni-marburg.de/fb16/ipc/ag_hartmann homepage]
 
  
 
=Your additional remarks=
 
=Your additional remarks=
Line 87: Line 91:
 
=References=
 
=References=
  
−
<pubmed>15811922,,11886746 15811922, </pubmed>
+
==Reviews==
 +
<pubmed> 12730326, 19609260 </pubmed>
 +
==Original Publications==
 +
<pubmed>18977770,11395451,17369301,,10881189,14766921, </pubmed>
  
 
[[Category:small RNA]]
 
[[Category:small RNA]]

Revision as of 13:51, 8 December 2010

  • Description: tmRNA

Gene name ssrA
Synonyms
Essential no
Product tmRNA
Function trans-translation
Gene length bp
Immediate neighbours yvaG, smpB
Gene sequence (+200bp)
Genetic context
SsrA context.gif
This image was kindly provided by SubtiList







Categories containing this gene/protein

translation, ncRNA

This gene is a member of the following regulons

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

  • Operon:
  • Regulation:
  • Regulatory mechanism:
  • Additional information:

Biological materials

  • Mutant: GP323 (cat), available in the Stülke lab
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/RNA

Your additional remarks

References

Reviews

Janine Kirstein, Noël Molière, David A Dougan, Kürşad Turgay
Adapting the machine: adaptor proteins for Hsp100/Clp and AAA+ proteases.
Nat Rev Microbiol: 2009, 7(8);589-99
[PubMed:19609260] [WorldCat.org] [DOI] (I p)

Jeffrey H Withey, David I Friedman
A salvage pathway for protein structures: tmRNA and trans-translation.
Annu Rev Microbiol: 2003, 57;101-23
[PubMed:12730326] [WorldCat.org] [DOI] (P p)

Original Publications

Hiromi Ujiie, Tomoko Matsutani, Hisashi Tomatsu, Ai Fujihara, Chisato Ushida, Yasuhiko Miwa, Yasutaro Fujita, Hyouta Himeno, Akira Muto
Trans-translation is involved in the CcpA-dependent tagging and degradation of TreP in Bacillus subtilis.
J Biochem: 2009, 145(1);59-66
[PubMed:18977770] [WorldCat.org] [DOI] (I p)

Ji-Hyun Shin, Chester W Price
The SsrA-SmpB ribosome rescue system is important for growth of Bacillus subtilis at low and high temperatures.
J Bacteriol: 2007, 189(10);3729-37
[PubMed:17369301] [WorldCat.org] [DOI] (P p)

Marc A B Kolkman, Eugenio Ferrari
The fate of extracellular proteins tagged by the SsrA system of Bacillus subtilis.
Microbiology (Reading): 2004, 150(Pt 2);427-436
[PubMed:14766921] [WorldCat.org] [DOI] (P p)

T Wiegert, W Schumann
SsrA-mediated tagging in Bacillus subtilis.
J Bacteriol: 2001, 183(13);3885-9
[PubMed:11395451] [WorldCat.org] [DOI] (P p)

A W Karzai, E D Roche, R T Sauer
The SsrA-SmpB system for protein tagging, directed degradation and ribosome rescue.
Nat Struct Biol: 2000, 7(6);449-55
[PubMed:10881189] [WorldCat.org] [DOI] (P p)

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