Difference between revisions of "Sandbox"

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Line 4: Line 4:
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''lytF''
+
|''lytC''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''cwlE, yhdD ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''cwlB ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || gamma-D-glutamate-meso-diaminopimelate muropeptidase (major autolysin) (CWBP49')
+
|style="background:#ABCDEF;" align="center"| '''Product''' || N-acetylmuramoyl-L-alanine amidase (major autolysin) (CWBP49)
 +
(EC 3.5.1.28)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || cell wall lytic activity
+
|style="background:#ABCDEF;" align="center"|'''Function''' || involved in cell separation, cell wall turnover, antibiotic-induced
 +
lysis, motility and general cell lysis induced by sodium azide
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 51 kDa, 10.41  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 52 kDa, 10.108  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1464 bp, 488 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1488 bp, 496 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhdC]]'', ''[[nsrR]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tuaA]]'', ''[[lytB]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/lytF_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/lytC_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/lytF_protein.txt Protein sequence]'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/lytC_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:lytC_context.gif]]
−
|-
 
−
|colspan="2" | '''Genetic context''' <br/> [[Image:lytF_context.gif]]
 
 
|-
 
|-
 
|}
 
|}
Line 43: Line 43:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/lytF.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/lytABC.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13010]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10407]
  
 
=== Additional information===
 
=== Additional information===
Line 90: Line 90:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[lytF]]''
+
* '''Operon:''' ''[[lytA]]-[[lytB]]-[[lytC]]''
  
−
* '''Sigma factor:''' [[SigD]]
+
* '''Sigma factor:''' [[SigA]], [[SigD]]
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' repressed by [[YvrHb]]  [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
  
 
* '''Additional information:'''
 
* '''Additional information:'''

Revision as of 16:47, 9 March 2009

  • Description: write here

Gene name lytC
Synonyms cwlB
Essential no
Product N-acetylmuramoyl-L-alanine amidase (major autolysin) (CWBP49)

(EC 3.5.1.28)

Function involved in cell separation, cell wall turnover, antibiotic-induced

lysis, motility and general cell lysis induced by sodium azide

MW, pI 52 kDa, 10.108
Gene length, protein length 1488 bp, 496 aa
Immediate neighbours tuaA, lytB
Gene sequence (+200bp) Protein sequence
Genetic context
LytC 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:
  • 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:
  • 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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