Difference between revisions of "Easter egg"

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−
* '''Description:''' 4.5 S RNA<br/><br/>
+
* '''Description:''' 6S RNA<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'''
−
|''scr''
+
|''bsrA''
 
|-
 
|-
 
|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''' || small cytoplasmic RNA (scRNA, 4.5S RNA),
+
|style="background:#ABCDEF;" align="center"| '''Product''' || 6S RNA
−
 
+
|-
−
signal recognition particle-like (SRP) component
+
|style="background:#ABCDEF;" align="center"|'''Function''' || antagonist of [[SigA]]
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || presecretory protein translocation
+
|style="background:#ABCDEF;" align="center"| '''Gene length''' || 190 bp
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yaaJ]]'', ''[[dnaX]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yrvM]]'', ''[[aspS]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/scr_nucleotide.txt    Gene sequence      (+200bp)  ]'''
+
|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/scr_protein.txt Protein sequence]'''
 
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:scr_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:BsrA_context.jpeg]]
−
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
 
|-
 
|-
 
|}
 
|}
Line 28: Line 26:
 
__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|[[protein secretion]]}},
+
{{SubtiWiki category|[[sigma factors and their control]]}},
 
{{SubtiWiki category|[[ncRNA]]}}
 
{{SubtiWiki category|[[ncRNA]]}}
  
Line 44: Line 43:
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
 +
 +
reduced growth rate  [http://www.ncbi.nlm.nih.gov/sites/entrez/12177353 PubMed]
 +
  
 
=== Database entries ===
 
=== Database entries ===
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* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG00095]
+
* '''SubtiList entry:''' no entry
−
 
+
−
* '''Structure:'''
+
* '''Structure:'''  
  
 
=== Additional information===
 
=== Additional information===
Line 57: Line 59:
  
  
−
=The RNA=
 
−
 
−
=== Basic information/ Evolution ===
 
−
 
−
* '''Catalyzed reaction/ biological activity:'''
 
−
 
−
=== Extended information on the RNA===
 
−
 
−
* '''Kinetic information'''
 
−
 
−
* '''Interactions:''' [[Scr]]-[[Ffh]]
 
−
 
−
* '''Localization'''
 
−
 
−
=== Database entries ===
 
−
 
−
* '''Structure''':
 
−
 
−
=== Additional information===
 
  
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[yaaJ]]-[[scr]], [[scr]]''
+
* '''Operon:''' ''bsrA'' [http://www.ncbi.nlm.nih.gov/sites/entrez/12177353 PubMed]
  
−
* '''Sigma factor:''' [[SigA]] (both promoters)
+
* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12177353 PubMed]
  
−
* '''Regulation:'''  
+
* '''Regulation:''' expressed in vegetative cells  [http://www.ncbi.nlm.nih.gov/sites/entrez/12177353 PubMed]
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:''' transcribed as 354 nt precursor, cleaved at the 5' end by [[rnc| RNase III]] and at the 3' site by [[rnjA| RNase J1]] to yield a 275 nt molecule, final trimming to 271 nt sc RNA by [[rph| RNase PH]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17576666 PubMed]
+
* '''Additional information:''' transcribed as 201 nt RNA, processed to mature 190 bp 6S RNA [http://www.ncbi.nlm.nih.gov/sites/entrez/12177353 PubMed]
  
 
=Biological materials =
 
=Biological materials =
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* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
  
−
=Labs working on this gene/protein=
 
  
−
[[David Bechhofer]], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]
+
=Labs working on this gene/RNA=
 +
 
 +
Kouji Nakamura, Tsukuba, University, Japan
 +
 
 +
[[Roland Hartmann]], Philipps-Universität Marburg, Marburg, Germany, [http://www.uni-marburg.de/fb16/ipc/ag_hartmann Homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=
Line 105: Line 91:
 
=References=
 
=References=
  
−
<pubmed>9346318,2468993,17576666, </pubmed>
+
<pubmed>15811922,,12177353 15811922, </pubmed>
  
 
[[Category:small RNA]]
 
[[Category:small RNA]]

Revision as of 14:50, 8 December 2010

  • Description: 6S RNA

Gene name bsrA
Synonyms
Essential no
Product 6S RNA
Function antagonist of SigA
Gene length 190 bp
Immediate neighbours yrvM, aspS
Gene sequence (+200bp)
Genetic context
BsrA context.jpeg








Categories containing this gene/protein

sigma factors and their control, ncRNA

This gene is a member of the following regulons

The gene

Basic information

  • Locus tag:

Phenotypes of a mutant

reduced growth rate PubMed


Database entries

  • DBTBS entry: no entry
  • SubtiList entry: no entry
  • Structure:

Additional information

Expression and regulation

  • Regulation: expressed in vegetative cells PubMed
  • Regulatory mechanism:
  • Additional information: transcribed as 201 nt RNA, processed to mature 190 bp 6S RNA PubMed

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:


Labs working on this gene/RNA

Kouji Nakamura, Tsukuba, University, Japan

Roland Hartmann, Philipps-Universität Marburg, Marburg, Germany, Homepage

Your additional remarks

References

Jeffrey E Barrick, Narasimhan Sudarsan, Zasha Weinberg, Walter L Ruzzo, Ronald R Breaker
6S RNA is a widespread regulator of eubacterial RNA polymerase that resembles an open promoter.
RNA: 2005, 11(5);774-84
[PubMed:15811922] [WorldCat.org] [DOI] (P p)

Satoru Suzuma, Sayaka Asari, Keigo Bunai, Keiko Yoshino, Yoshinari Ando, Hiroshi Kakeshita, Masaya Fujita, Kouji Nakamura, Kunio Yamane
Identification and characterization of novel small RNAs in the aspS-yrvM intergenic region of the Bacillus subtilis genome.
Microbiology (Reading): 2002, 148(Pt 8);2591-2598
[PubMed:12177353] [WorldCat.org] [DOI] (P p)

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