Difference between revisions of "Sandbox"

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* '''Description:''' resuscitation-promoting factor/stationary-phase survival (Rpf/Sps) family autolysin.<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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|''yabE''
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|''tagD''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no
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|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' ||  
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|style="background:#ABCDEF;" align="center"| '''Product''' || glycerol-3-phosphate cytidylyltransferase (EC 2.7.7.39)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+
|style="background:#ABCDEF;" align="center"|'''Function''' ||  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 47 kDa, 9.282  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 15 kDa, 5.672  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1311 bp, 437 aa  
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 387 bp, 129 aa  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yabD]]'', ''[[rnmV]]''
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tagE]]'', ''[[tagA]]''
 
|-
 
|-
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yabE_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/tagD_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yabE_protein.txt Protein sequence]'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/tagD_protein.txt Protein sequence]'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:yabE_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:tagD_context.gif]]
 
|-
 
|-
 
|}
 
|}
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===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
 +
 +
essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yabE.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/tagDEF.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10103]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10449]
  
 
=== Additional information===
 
=== Additional information===
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* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
−
* '''Domains:''' contains a SPS domain
+
* '''Domains:'''  
  
 
* '''Modification:'''
 
* '''Modification:'''
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''yabE'' [http://www.ncbi.nlm.nih.gov/sites/entrez/19047346 PubMed]
+
* '''Operon:'''  
  
−
* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19047346 PubMed]
+
* '''Sigma factor:'''  
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
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* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:''' expression is negatively controlled by a cis-acting antisense RNA that is dependent on [[SigX]] and [[SigM]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19047346 PubMed]
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
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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=
  
−
# Eiamphungporn W, Helmann JD (2009) Extracytoplasmic function sigma factors regulate expression of the ''Bacillus subtilis yabE'' gene via a cis-acting antisense RNA. ''J. Bacteriol.'' '''191:''' 1101-1105. [http://www.ncbi.nlm.nih.gov/sites/entrez/19047346 PubMed]
+
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 16:47, 9 March 2009

  • Description: write here

Gene name tagD
Synonyms
Essential yes PubMed
Product glycerol-3-phosphate cytidylyltransferase (EC 2.7.7.39)
Function
MW, pI 15 kDa, 5.672
Gene length, protein length 387 bp, 129 aa
Immediate neighbours tagE, tagA
Gene sequence (+200bp) Protein sequence
Genetic context
TagD context.gif



The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

essential PubMed

Database entries

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

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:
  • E.C. number:

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/protein

Your additional remarks

References

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