Difference between revisions of "Sandbox"

From SubtiWiki
Jump to: navigation, search
Line 1: Line 1:
−
* '''Description:''' write here <br/><br/>
+
* '''Description:''' resuscitation-promoting factor/stationary-phase survival (Rpf/Sps) family autolysin.<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'''
−
|''ispG''
+
|''yabE''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yqfY''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Product''' ||  
 
|style="background:#ABCDEF;" align="center"| '''Product''' ||  
Line 14: Line 14:
 
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 40 kDa, 6.802  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 47 kDa, 9.282  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1131 bp, 377 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1311 bp, 437 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqfZ]]'', ''[[yqfX]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yabD]]'', ''[[rnmV]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yqfY_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yabE_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yqfY_protein.txt Protein sequence]'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yabE_protein.txt Protein sequence]'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:yqfY_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:yabE_context.gif]]
 
|-
 
|-
 
|}
 
|}
Line 38: Line 38:
  
 
===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/yqfZY.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yabE.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11671]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10103]
  
 
=== Additional information===
 
=== Additional information===
Line 64: Line 62:
 
* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
−
* '''Domains:'''  
+
* '''Domains:''' contains a SPS domain
  
 
* '''Modification:'''
 
* '''Modification:'''
Line 90: Line 88:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''Operon:''' ''yabE'' [http://www.ncbi.nlm.nih.gov/sites/entrez/19047346 PubMed]
  
−
* '''Sigma factor:'''  
+
* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19047346 PubMed]
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
Line 98: Line 96:
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''  
+
* '''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]
  
 
=Biological materials =
 
=Biological materials =
Line 115: Line 113:
  
 
=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=
Line 120: Line 119:
 
=References=
 
=References=
  
−
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
+
# 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]

Revision as of 16:47, 9 March 2009

  • Description: resuscitation-promoting factor/stationary-phase survival (Rpf/Sps) family autolysin.

Gene name yabE
Synonyms
Essential no
Product
Function unknown
MW, pI 47 kDa, 9.282
Gene length, protein length 1311 bp, 437 aa
Immediate neighbours yabD, rnmV
Gene sequence (+200bp) Protein sequence
Genetic context
YabE context.gif



The gene

Basic information

  • Coordinates:

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:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains: contains a SPS domain
  • 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

  • Regulation:
  • Regulatory mechanism:
  • Additional information: expression is negatively controlled by a cis-acting antisense RNA that is dependent on SigX and SigM PubMed

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/protein

John Helmann, Cornell University, USA Homepage

Your additional remarks

References

  1. 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. PubMed
Retrieved from "http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Sandbox&oldid=28979"