Difference between revisions of "Sandbox"

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* '''Description:''' resistence protein (against sublancin) <br/><br/>
+
* '''Description:''' potential sRNA, might interact with [[CsrA]] <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'''
−
|''yqeZ''
+
|''rsmY''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''csrB ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || seine protease, resistence protein (against sublancin)
+
|style="background:#ABCDEF;" align="center"| '''Product''' || potential sRNA
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || resistance against sublancin
+
|style="background:#ABCDEF;" align="center"|'''Function''' || [[CsrA]]-binding RNA, antagonizing [[CsrA]] regulation
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 46 kDa, 5.644 
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || xx,x kDa, y.yy
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1311 bp, 437 aa
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || aaa bp, bbb amino acids
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqfA]]'', ''[[yqeY]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yybO]]'', ''[[yybN]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14481&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_nucleotide.txt    Gene sequence      (+200bp)  ]'''
 +
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_protein.txt Protein sequence]'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:yqeZ_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:rsmY_context.gif]]
−
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
 
|-
 
|-
 
|}
 
|}
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=== Basic information ===
 
=== Basic information ===
−
 
+
−
* '''Locus tag:''' BSU25390
+
* '''Locus tag:'''
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yqeZ-yqfA-yqfB.html]
+
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11650]
+
* '''SubtiList entry:'''
  
 
=== Additional information===
 
=== Additional information===
  
  
−
=The protein=
+
=The RNA=
  
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Biological activity:'''  
−
 
 
−
* '''Protein family:'''
 
−
 
 
−
* '''Paralogous protein(s):'''
 
−
 
 
−
=== Extended information on the protein ===
 
−
 
 
−
* '''Kinetic information:'''
 
−
 
 
−
* '''Domains:'''
 
−
 
 
−
* '''Modification:'''
 
−
 
 
−
* '''Cofactor(s):'''
 
−
 
 
−
* '''Effectors of protein activity:'''
 
−
 
 
−
* '''Interactions:'''
 
−
 
 
−
* '''Localization:''' cell membrane (according to Swiss-Prot)
 
−
 
 
−
=== Database entries ===
 
−
 
 
−
* '''Structure:'''
 
−
 
 
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P54465 P54465]
 
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU25390]
+
* '''Interactions:''' [[CsrA]]-[[RsmY]] (hypothetical)
  
−
* '''E.C. number:'''
+
* '''Structure:'''
  
 
=== Additional information===
 
=== Additional information===
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=Biological materials =
 
=Biological materials =
  
−
* '''Mutant:'''
+
* '''Mutant:''' GP822, aphA3, available in the [[Stülke]] lab
  
 
* '''Expression vector:'''
 
* '''Expression vector:'''
−
       
+
 
* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
  

Revision as of 21:55, 12 June 2009

  • Description: potential sRNA, might interact with CsrA

Gene name rsmY
Synonyms csrB
Essential no
Product potential sRNA
Function CsrA-binding RNA, antagonizing CsrA regulation
MW, pI xx,x kDa, y.yy
Gene length, protein length aaa bp, bbb amino acids
Immediate neighbours yybO, yybN
Gene sequence (+200bp) Protein sequence
Genetic context
File:RsmY context.gif



The gene

Basic information

  • Locus tag:

Phenotypes of a mutant

Database entries

  • DBTBS entry: no entry
  • SubtiList entry:

Additional information

The RNA

Basic information/ Evolution

  • Biological activity:
  • Structure:

Additional information

Expression and regulation

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

Biological materials

  • Mutant: GP822, aphA3, available in the Stülke lab
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/protein

Your additional remarks

References

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