Difference between revisions of "Sandbox"

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* '''Description:''' regulatory RNA<br/><br/>
+
* '''Description:''' ABC transporter (FtsEX), required for proper activation of Spo0A and initiation of sporulation <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'''
−
|''fsrA''
+
|''ftsX''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''mrgC''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || sRNA FsrA
+
|style="background:#ABCDEF;" align="center"| '''Product''' || ABC transporter (FtsEX)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || inhibition of ''[[sdhC]]'' translation
+
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length''' || aaa bp
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 32 kDa, 10.016 
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykuI]]'', ''[[ykuJ]]''
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 888 bp, 296 aa
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ctpB]]'', ''[[ftsE]]''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:FsrA_context.jpg]]
+
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15542&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 +
|-
 +
|colspan="2" | '''Genetic context''' <br/> [[Image:ftsX_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:'''
+
* '''Locus tag:''' BSU35250
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
Line 38: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' no entry
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ftsEX.html]
  
−
* '''SubtiList entry:''' no entry
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12591]
  
−
* '''Structure:'''
+
=== Additional information===
 +
 
 +
 
 +
=The protein=
 +
 
 +
=== Basic information/ Evolution ===
  
−
=== Additional information===
+
* '''Catalyzed reaction/ biological activity:'''
  
−
* '''Swiss prot entry:'''
+
* '''Protein family:''' FtsX subfamily (according to Swiss-Prot)
  
−
* '''KEGG entry:''' no entry
+
* '''Paralogous protein(s):'''
−
 
 
−
* '''E.C. number:'''
 
  
−
=== Additional information===
+
=== Extended information on the protein ===
  
−
=The RNA=
+
* '''Kinetic information:'''
  
−
=== Basic information/ Evolution ===
+
* '''Domains:'''
  
−
* '''Catalyzed reaction/ biological activity:''' hybridizes to ''[[sdhC]], [[citB]], [[lutB]], and [[leuC]]-[[leuD]]'' mRNAs and inhibits their translation. [http://www.ncbi.nlm.nih.gov/sites/entrez/18697947 PubMed]
+
* '''Modification:'''
  
−
=== Extended information on the RNA===
+
* '''Cofactor(s):'''
  
−
* '''Kinetic information'''
+
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' Binds ''[[sdhC]], [[citB]], [[lutB]], and [[leuC]]-[[leuD]]'' mRNAs [http://www.ncbi.nlm.nih.gov/sites/entrez/18697947 PubMed]
+
* '''Interactions:'''
  
−
* '''Localization'''
+
* '''Localization:''' cell membrane (according to Swiss-Prot),  membrane associated [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''Structure''':  
+
* '''Structure:'''
 +
 
 +
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O34876 O34876]
 +
 
 +
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU35250]
 +
 
 +
* '''E.C. number:'''
  
 
=== Additional information===
 
=== Additional information===
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* '''[[Sigma factor]]:'''  
 
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:''' induced by iron starvation ([[Fur]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/18697947 PubMed]
+
* '''Regulation:'''  
  
−
* '''Regulatory mechanism:''' [[Fur]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/18697947 PubMed]
+
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
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* '''Expression vector:'''
 
* '''Expression vector:'''
−
+
       
 
* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
  
−
=Labs working on this gene/RNA=
+
* '''GFP fusion:'''
 +
 
 +
* '''two-hybrid system:'''
 +
 
 +
* '''Antibody:'''
  
−
[[John Helmann]], Cornell University, USA [http://www.micro.cornell.edu/research/labs/helmann-lab/index.cfm Homepage]
+
=Labs working on this gene/protein=
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
−
<pubmed>18697947, </pubmed>
+
<pubmed>18763711, </pubmed>
−
# Gaballa A, Antelmann H, Aguilar C, Khakh SK, Song KB, Smaldone GT, Helmann JD (2008) The ''Bacillus subtilis'' iron-sparing response is mediated by a Fur-regulated small RNA and three small, basic proteins. PNAS 105: 11927-11932. [http://www.ncbi.nlm.nih.gov/sites/entrez/18697947 PubMed]
+
# Hahne et al. (2008) From complementarity to comprehensiveness - targeting the membrane proteome of growing ''Bacillus subtilis'' by divergent approaches. Proteomics '''8:''' 4123-4136 [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 14:03, 8 June 2009

  • Description: ABC transporter (FtsEX), required for proper activation of Spo0A and initiation of sporulation

Gene name ftsX
Synonyms
Essential no
Product ABC transporter (FtsEX)
Function initiation of sporulation
MW, pI 32 kDa, 10.016
Gene length, protein length 888 bp, 296 aa
Immediate neighbours ctpB, ftsE
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
FtsX context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU35250

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: FtsX subfamily (according to Swiss-Prot)
  • 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), membrane associated PubMed

Database entries

  • Structure:
  • KEGG entry: [3]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Regulation:
  • 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

Hannes Hahne, Susanne Wolff, Michael Hecker, Dörte Becher
From complementarity to comprehensiveness--targeting the membrane proteome of growing Bacillus subtilis by divergent approaches.
Proteomics: 2008, 8(19);4123-36
[PubMed:18763711] [WorldCat.org] [DOI] (I p)

  1. Hahne et al. (2008) From complementarity to comprehensiveness - targeting the membrane proteome of growing Bacillus subtilis by divergent approaches. Proteomics 8: 4123-4136 PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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