Difference between revisions of "Sandbox"

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* '''Description:''' transcription regulator of iron homoeostasis <br/><br/>
+
* '''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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|''fur''
+
|''ripX''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yqkL ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykqM ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional repressor
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|style="background:#ABCDEF;" align="center"| '''Product''' || site-specific integrase/recombinase
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of iron homoeostasis
+
|style="background:#ABCDEF;" align="center"|'''Function''' || involved in the resolution of chromosome dimers
−
and transcription of ferri-siderophore uptake genes
 
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 5.374  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33 kDa, 10  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 447 bp, 149 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 888 bp, 296 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ripX]]'', ''[[spoIIM]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[drm]]'', ''[[fur]]''
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
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|-
 
|-
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:fur_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:ripX_context.gif]]
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
|-
 
|-
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__TOC__
 
__TOC__
  
−
<br/><br/>
+
<br/><br/><br/><br/>
  
 
=The gene=
 
=The gene=
Line 44: Line 43:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/fur.html]
+
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11766]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11332]
  
 
=== Additional information===
 
=== Additional information===
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* '''Protein family:'''
 
* '''Protein family:'''
  
−
* '''Paralogous protein(s):''' [[PerR]], [[Zur]]
+
* '''Paralogous protein(s):'''
−
 
 
−
=== Genes controlled by Fur ===
 
−
 
 
−
''[[fsrA]]''
 
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
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* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU23520]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU23510]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
−
[[John Helmann]], Cornell University, USA [http://www.micro.cornell.edu/research/labs/helmann-lab/index.cfm Homepage]
 
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
−
# Baichoo N, Wang T, Ye R, Helmann JD. (2002) Global analysis of the Bacillus subtilis Fur regulon and the iron starvation stimulon. ''Mol Microbiol.'' '''Sep;45(6):''' 1613-29. [http://www.ncbi.nlm.nih.gov/sites/entrez/12354229  PubMed]
+
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
−
# Ollinger J, Song KB, Antelmann H, Hecker M, Helmann JD. (2006) Role of the Fur regulon in iron transport in Bacillus subtilis. ''J Bacteriol.'' '''May;188(10):''' 3664-73. [http://www.ncbi.nlm.nih.gov/sites/entrez/16672620  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/PMID PubMed]
 

Revision as of 15:15, 15 April 2009

  • Description: write here

Gene name ripX
Synonyms ykqM
Essential no
Product site-specific integrase/recombinase
Function involved in the resolution of chromosome dimers
MW, pI 33 kDa, 10
Gene length, protein length 888 bp, 296 aa
Immediate neighbours drm, fur
Hier soll was neues rein
Genetic context
RipX context.gif
This image was kindly provided by SubtiList





The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization:

Database entries

  • Structure:
  • Swiss prot entry:
  • KEGG entry: [2]
  • 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

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