Difference between revisions of "Easter egg"

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−
* '''Description:''' 6S RNA<br/><br/>
+
* '''Description:''' RNA component of [[RNase]] P <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'''
−
|''bsrA''
+
|''rnpB''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''rnaP ''
 
|-
 
|-
 
|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''' || RNA component of ribonuclease P <br/>([[RNase]] P) (catalytic subunit, ribozyme)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || antagonist of [[SigA]]
+
|style="background:#ABCDEF;" align="center"|'''Function''' || cleavage of precursor sequences <br/>from the 5' ends of pre-tRNAs
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length''' ||  190 bp
+
|style="background:#ABCDEF;" align="center"| '''Gene length''' ||  401 bp
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yrvM]]'', ''[[aspS]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ypsC]]'', ''[[ypsB]]''
 
|-
 
|-
−
|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/rnpB_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
 +
 
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:BsrA_context.jpeg]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:rnpB_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/><br/>
 
 
= [[Categories]] containing this gene/protein =
 
= [[Categories]] containing this gene/protein =
−
{{SubtiWiki category|[[sigma factors and their control]]}},
+
{{SubtiWiki category|[[Rnases]]}},
 +
{{SubtiWiki category|[[translation]]}},
 
{{SubtiWiki category|[[ncRNA]]}}
 
{{SubtiWiki category|[[ncRNA]]}}
  
Line 44: Line 46:
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
  
−
reduced growth rate  [http://www.ncbi.nlm.nih.gov/sites/entrez/12177353 PubMed]
+
=== Database entries ===
 +
 
 +
* '''DBTBS entry:''' no entry
 +
 
 +
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG00045]
 +
 
 +
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2A64 2A64] (from Geobacillus stearothermophilus),  [http://www.rcsb.org/pdb/explore.do?structureId=1NBS 1NBS] (specificity domain)
  
  
−
=== Database entries ===
 
  
−
* '''DBTBS entry:''' no entry
+
=The RNA=
  
−
* '''SubtiList entry:''' no entry
+
* '''Biological activity:''' 5' end maturation of precursor tRNAs
−
 
−
* '''Structure:'''  
 
  
−
=== Additional information===
+
* '''RNA family:'''
  
 +
* '''cofactor:''' divalent cations (Ca(II) or Mg (II)) for the stabilization of the complex with pre-tRNA {{PubMed|20434461}}
  
 +
* '''interaction:''' [[RnpA]]-RnpB
  
 +
=== Additional information===
  
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''bsrA''  [http://www.ncbi.nlm.nih.gov/sites/entrez/12177353 PubMed]
+
* '''Operon:'''  
  
−
* '''Sigma factor:''' [[SigA]]  [http://www.ncbi.nlm.nih.gov/sites/entrez/12177353 PubMed]
+
* '''Sigma factor:'''  
  
−
* '''Regulation:''' expressed in vegetative cells  [http://www.ncbi.nlm.nih.gov/sites/entrez/12177353 PubMed]
+
* '''Regulation:'''  
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:''' transcribed as 201 nt RNA, processed to mature 190 bp 6S RNA  [http://www.ncbi.nlm.nih.gov/sites/entrez/12177353 PubMed]
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
Line 80: Line 88:
 
* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
  
 +
* '''GFP fusion:'''
  
−
=Labs working on this gene/RNA=
+
* '''two-hybrid system:'''
  
−
Kouji Nakamura, Tsukuba, University, Japan
+
* '''Antibody:'''
  
−
[[Roland Hartmann]], Philipps-Universität Marburg, Marburg, Germany, [http://www.uni-marburg.de/fb16/ipc/ag_hartmann Homepage]
+
=Labs working on this gene/RNA=
 +
* [[Carol Fierke]], University of Michigan, Ann Arbor, USA [https://www.chem.lsa.umich.edu/chem/faculty/facultyDetail.php?Uniqname=fierke homepage]
 +
* [[Roland Hartmann]], Marburg University, Germany [http://www.pharmazie.uni-marburg.de/pharmchem/akhartmann/ag_hartmann.htm homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=
  
 
=References=
 
=References=
 +
==Reviews==
 +
<pubmed> 19215776 17868095 14691942 16650980 16980936 16679018 14550630 </pubmed>
  
−
<pubmed>15811922,,12177353 15811922, </pubmed>
+
==Original Publications==
 +
<pubmed>16470227,17355991,11812129,10390342,11454206, 19549719,11454206, 19717440 ,20133747  19932118 20188108 20434461 17299131 14510496 12951523 12836338 11577704 20557101 </pubmed>
  
 
[[Category:small RNA]]
 
[[Category:small RNA]]

Revision as of 13:50, 8 December 2010

  • Description: RNA component of RNase P

Gene name rnpB
Synonyms rnaP
Essential no
Product RNA component of ribonuclease P
(RNase P) (catalytic subunit, ribozyme)
Function cleavage of precursor sequences
from the 5' ends of pre-tRNAs
Gene length 401 bp
Immediate neighbours ypsC, ypsB
Gene sequence (+200bp)
Genetic context
RnpB context.gif
This image was kindly provided by SubtiList








Categories containing this gene/protein

Rnases, 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: 2A64 (from Geobacillus stearothermophilus), 1NBS (specificity domain)


The RNA

  • Biological activity: 5' end maturation of precursor tRNAs
  • RNA family:
  • cofactor: divalent cations (Ca(II) or Mg (II)) for the stabilization of the complex with pre-tRNA PubMed
  • interaction: RnpA-RnpB

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/RNA

Your additional remarks

References

Reviews

Roland K Hartmann, Markus Gössringer, Bettina Späth, Susan Fischer, Anita Marchfelder
The making of tRNAs and more - RNase P and tRNase Z.
Prog Mol Biol Transl Sci: 2009, 85;319-68
[PubMed:19215776] [WorldCat.org] [DOI] (P p)

J Kristin Smith, John Hsieh, Carol A Fierke
Importance of RNA-protein interactions in bacterial ribonuclease P structure and catalysis.
Biopolymers: 2007, 87(5-6);329-38
[PubMed:17868095] [WorldCat.org] [DOI] (P p)

Alexei V Kazantsev, Norman R Pace
Bacterial RNase P: a new view of an ancient enzyme.
Nat Rev Microbiol: 2006, 4(10);729-40
[PubMed:16980936] [WorldCat.org] [DOI] (I p)

Donald Evans, Steven M Marquez, Norman R Pace
RNase P: interface of the RNA and protein worlds.
Trends Biochem Sci: 2006, 31(6);333-41
[PubMed:16679018] [WorldCat.org] [DOI] (P p)

Alfredo Torres-Larios, Kerren K Swinger, Tao Pan, Alfonso Mondragón
Structure of ribonuclease P--a universal ribozyme.
Curr Opin Struct Biol: 2006, 16(3);327-35
[PubMed:16650980] [WorldCat.org] [DOI] (P p)

John Hsieh, Andy J Andrews, Carol A Fierke
Roles of protein subunits in RNA-protein complexes: lessons from ribonuclease P.
Biopolymers: 2004, 73(1);79-89
[PubMed:14691942] [WorldCat.org] [DOI] (P p)

Enno Hartmann, Roland K Hartmann
The enigma of ribonuclease P evolution.
Trends Genet: 2003, 19(10);561-9
[PubMed:14550630] [WorldCat.org] [DOI] (P p)


Original Publications

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