Difference between revisions of "Sandbox"

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−
 
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* '''Description:''' subtilosin A <br/><br/>
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* '''Description:''' write here <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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|''yrzQ''
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|''sboA''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''sbo ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || write here
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || write here
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|style="background:#ABCDEF;" align="center"| '''Product''' || subtilosin A
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Function''' || write here
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|style="background:#ABCDEF;" align="center"|'''Function''' || antimicrobial peptide
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' ||   
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 4 kDa, 4.569  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' ||  
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 129 bp, 43 aa
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' ||  
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywiB]]'', ''[[sboX]]''
 
|-
 
|-
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_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:CAB15763&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_protein.txt Protein sequence]'''
 
 
|-
 
|-
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|colspan="2" | '''Genetic context''' <br/> [[Image:yrzQ_context.gif]]
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|colspan="2" | '''Genetic context''' <br/> [[Image:sboA_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 ===
  
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* '''Locus tag:'''
+
* '''Locus tag:''' BSU37350
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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=== Database entries ===
 
=== Database entries ===
  
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* '''DBTBS entry:''' no entry
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* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sboAX-albABCDEFG.html]
  
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* '''SubtiList entry:''' no entry
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* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12671]
  
 
=== Additional information===
 
=== Additional information===
 +
  
 
=The protein=
 
=The protein=
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* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
  
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* '''Protein family:'''
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* '''Protein family:''' bacteriocin class V family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
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* '''Interactions:'''
 
* '''Interactions:'''
  
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* '''Localization:'''
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* '''Localization:''' secreted (according to Swiss-Prot)
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''Structure:'''
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* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1PXQ 1PXQ]
  
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* '''Swiss prot entry:'''
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* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O07623 O07623]
  
−
* '''KEGG entry:'''
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* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU37350]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
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* '''Operon:'''  
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* '''Operon:''' ''[[sboA]]-[[sboX]]-[[albA]]-[[albB]]-[[albC]]-[[albD]]-[[albE]]-[[albF]]-[[albG]]''
  
−
* '''Sigma factor:'''  
+
* '''[[Sigma factor]]:''' [[SigA]]
  
−
* '''Regulation:'''  
+
* '''Regulation:''' repressed by AbrB [http://www.ncbi.nlm.nih.gov/pubmed/10572140,17720793 Pubmed]
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
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* '''Expression vector:'''
 
* '''Expression vector:'''
−
+
       
 
* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
  
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=References=
 
=References=
  
−
[http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=DetailsSearch&term=subtilis+yrzQ&log$=activity search PubMed]
+
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 14:48, 5 June 2009

  • Description: subtilosin A

Gene name sboA
Synonyms sbo
Essential no
Product subtilosin A
Function antimicrobial peptide
MW, pI 4 kDa, 4.569
Gene length, protein length 129 bp, 43 aa
Immediate neighbours ywiB, sboX
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
SboA context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU37350

Phenotypes of a mutant

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family: bacteriocin class V family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization: secreted (according to Swiss-Prot)

Database entries

  • KEGG entry: [3]
  • E.C. number:

Additional information

Expression and regulation

  • Regulation: repressed by AbrB Pubmed
  • Regulatory mechanism:
  • Additional information:

Biological materials

  • Mutant:
  • 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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