Difference between revisions of "Sandbox"

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|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''mreB''
+
|''cwlD''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''divIVB ''
+
|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''' || cell-shape determining protein
+
|style="background:#ABCDEF;" align="center"| '''Product''' || N-acetylmuramoyl-L-alanine amidase (EC 3.5.1.28)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' ||  
+
|style="background:#ABCDEF;" align="center"|'''Function''' || cell wall hydrolase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 4.901  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26 kDa, 9.788  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length,  length''' || 1011 bp, 337 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length,  length''' || 711 bp, 237 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[mreC]]'', ''[[radC]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ybaK]]'', ''[[salA]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/mreB_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/cwlD_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/mreB_protein.txt Protein sequence]'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/cwlD_protein.txt Protein sequence]'''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;color:#FF0000" align="center" | '''Caution: The sequence for this gene in SubtiList contains errors
+
|colspan="2" | '''Genetic context''' <br/> [[Image:cwlD_context.gif]]
−
|-
 
−
|colspan="2" | '''Genetic context''' <br/> [[Image:mreB_context.gif]]
 
 
|-
 
|-
 
|}
 
|}
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===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
−
 
−
essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed], the mutation can be suppressed by inactivation of ''[[ponA]]'', ''[[ptsI]]'', ''[[ccpA]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/19192185 PubMed] or addition of 5 mM Magnesium to the growth medium [http://www.ncbi.nlm.nih.gov/pubmed/15752190 PubMed]
 
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/mreBCD-minCD.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ybaK-cwlD.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10326]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11514]
  
 
=== Additional information===
 
=== Additional information===
Line 60: Line 56:
 
* '''Protein family:'''
 
* '''Protein family:'''
  
−
* '''Paralogous protein(s):''' [[Mbl]], [[MreBH]]
+
* '''Paralogous protein(s):'''
  
 
=== Extended information on the  ===
 
=== Extended information on the  ===
Line 74: Line 70:
 
* '''Effectors of  activity:'''
 
* '''Effectors of  activity:'''
  
−
* '''Interactions:''' [[MreB]]-[[Mbl]], [[MreB]]-[[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 92: Line 88:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[mreB]]-[[mreC]]-[[mreD]]-[[minC]]-[[minD]]''
+
* '''Operon:''' ''[[ybaK]]-[[cwlD]]''
  
−
* '''Sigma factor:''' [[SigH]] [http://www.ncbi.nlm.nih.gov/sites/entrez/8459776 PubMed]
+
* '''Sigma factor:''' [[SigE]], [[SigG]]
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
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* '''GFP fusion:'''
 
* '''GFP fusion:'''
  
−
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jeff Errington]] lab
+
* '''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=
−
 
−
[[Jeff Errington]], Newcastle University, UK [http://www.ncl.ac.uk/camb/staff/profile/jeff.errington homepage]
 
−
 
−
[[Peter Graumann]], Freiburg University, Germany [http://www.biologie.uni-freiburg.de/data/bio2/graumann/index.htm homepage]
 
  
 
=Your additional remarks=
 
=Your additional remarks=
Line 126: Line 118:
 
=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]
 
−
# Kawai, Y., R. A. Daniel, J. Errington (2009) Regulation of cell wall morphogenesis in ''Bacillus subtilis'' by recruitment of PBP1 to the MreB helix. ''Mol. Microbiol.'' '''71:''' 1131-1144. [http://www.ncbi.nlm.nih.gov/sites/entrez/19192185 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 cwlD
Synonyms
Essential no
Product N-acetylmuramoyl-L-alanine amidase (EC 3.5.1.28)
Function cell wall hydrolase
MW, pI 26 kDa, 9.788
Gene length, length 711 bp, 237 aa
Immediate neighbours ybaK, salA
Gene sequence (+200bp) Protein sequence
Genetic context
CwlD 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

  • 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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