Difference between revisions of "Sandbox"

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|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''mbl''
+
|''gcaD''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''tms, tms26 ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || MreB-like protein
+
|style="background:#ABCDEF;" align="center"| '''Product''' || UDP-N-acetylglucosamine pyrophosphorylase (EC 2.7.7.23)
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Function''' ||  
 
|style="background:#ABCDEF;" align="center"|'''Function''' ||  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 5.669  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 49 kDa, 5.65  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length,  length''' || 999 bp, 333 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length,  length''' || 1368 bp, 456 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[flhO]]'', ''[[spoIIID]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spoVG]]'', ''[[prs]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/mbl_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/gcaD_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/mbl_protein.txt Protein sequence]'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/gcaD_protein.txt Protein sequence]'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:mbl_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:gcaD_context.gif]]
 
|-
 
|-
 
|}
 
|}
Line 39: Line 39:
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
  
−
non-viable in the presence of low Mg(2+), readily accumulate ''[[rsgI]]'' suppressor mutants [http://www.ncbi.nlm.nih.gov/sites/entrez/19114499 PubMed]
+
essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/usd-spoIIID-mbl-flhOP.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/gcaD-prs-ctc.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10916]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10113]
  
 
=== Additional information===
 
=== Additional information===
Line 58: Line 58:
 
* '''Protein family:'''
 
* '''Protein family:'''
  
−
* '''Paralogous protein(s):''' [[MreB]], [[MreBH]]
+
* '''Paralogous protein(s):'''
  
 
=== Extended information on the  ===
 
=== Extended information on the  ===
Line 72: Line 72:
 
* '''Effectors of  activity:'''
 
* '''Effectors of  activity:'''
  
−
* '''Interactions:''' [[MreB]]-[[Mbl]], [[Mbl]]-[[MreBH]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17064365 PubMed]
+
* '''Interactions:'''
  
−
* '''Localization:''' forms helical structures close to the inner surface of the cytoplasmic membrane [http://www.ncbi.nlm.nih.gov/sites/entrez/16950129 PubMed]
+
* '''Localization:'''
  
 
=== Database entries ===
 
=== Database entries ===
Line 90: Line 90:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''Operon:''' ''[[gcaD]]-[[prs]]-[[ctc]]''
  
−
* '''Sigma factor:'''  
+
* '''Sigma factor:''' [[SigA]]
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
Line 98: Line 98:
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
Line 112: Line 112:
 
* '''two-hybrid system:'''  
 
* '''two-hybrid system:'''  
  
−
* '''Antibody:''' available in the [[Jeff Errington]] and [[Peter Graumann]] labs
+
* '''Antibody:'''
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
−
 
−
[[Peter Graumann]], Freiburg University, Germany [http://www.biologie.uni-freiburg.de/data/bio2/graumann/index.htm homepage]
 
  
 
=Your additional remarks=
 
=Your additional remarks=
Line 122: Line 120:
 
=References=
 
=References=
  
−
# Carballido-Lopez, R., Formstone, A., Li, Y., Ehrlich, S. D., and Errington, J. (2006) Actin homolog MreBH governs cell morphogenesis by localization of the cell wall hydrolase LytE. Dev. Cell 11: 399-409. [http://www.ncbi.nlm.nih.gov/sites/entrez/16950129 PubMed]
 
−
# Defeu Soufo, H. J., and P. Graumann. 2006. Dynamic localization and interaction with other Bacillus subtilis actin-like proteins are important for the funtion of MreB. Mol. Microbiol. 62: 1340-1356. [http://www.ncbi.nlm.nih.gov/sites/entrez/17064365 PubMed]
 
−
# Schirner K, Errington J. (2009) Cell wall regulator {sigma}I specifically suppresses the lethal phenotype of mbl mutants in ''Bacillus subtilis''. ''J. Bacteriol.'' '''191:''' 1404-1413. [http://www.ncbi.nlm.nih.gov/sites/entrez/19114499 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 13:07, 17 March 2009

  • Description: write here

Gene name gcaD
Synonyms tms, tms26
Essential yes PubMed
Product UDP-N-acetylglucosamine pyrophosphorylase (EC 2.7.7.23)
Function
MW, pI 49 kDa, 5.65
Gene length, length 1368 bp, 456 aa
Immediate neighbours spoVG, prs
Gene sequence (+200bp) Protein sequence
Genetic context
GcaD 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

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

Database entries

  • Structure:
  • Swiss prot entry:
  • KEGG entry:
  • E.C. number:

Additional information

Expression and regulation

  • 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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