Difference between revisions of "Sandbox"

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−
* '''Description:''' trigger enzyme: mannitol-specific phosphotransferase system, EIICBA <br/><br/>
+
* '''Description:''' copper transporter <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'''
−
|''mtlA''
+
|''ycnJ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || trigger enzyme: mannitol-specific phosphotransferase system, EIICBA
+
|style="background:#ABCDEF;" align="center"| '''Product''' || copper transporter
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || mannitol uptake and phosphorylation, control of MtlR activity
+
|style="background:#ABCDEF;" align="center"|'''Function''' || uptake of copper
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 65 kDa, 8.778  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 59 kDa, 10.098  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1830 bp, 610 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1623 bp, 541 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ycnL]]'', ''[[mtlD]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ycnI]]'', ''[[ycnK]]''
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
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|-
 
|-
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:mtlA_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:ycnJ_context.gif]]
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
|-
 
|-
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===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
 +
 +
growth-defective under copper-limiting conditions [http://www.ncbi.nlm.nih.gov/sites/entrez/19168619 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
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* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11215]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12046]
  
 
=== Additional information===
 
=== Additional information===
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=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' uptake of copper [http://www.ncbi.nlm.nih.gov/sites/entrez/19168619 PubMed]
  
−
* '''Protein family:''' PTS permease, fructose/ mannitol permease (Fru) family [http://www.ncbi.nlm.nih.gov/pubmed/10627040 PubMed]
+
* '''Protein family:'''
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
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* '''Domains:'''  
 
* '''Domains:'''  
  
−
* '''Modification:''' phosphorylation on Ser-559 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
+
* '''Modification:'''
  
 
* '''Cofactor(s):'''
 
* '''Cofactor(s):'''
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* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU03980]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU03950]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[mtlA]]-[[mtlD]]''
+
* '''Operon:'''  
  
 
* '''[[Sigma factor]]:'''  
 
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:'''  
+
* '''Regulation:''' eightfold induction under copper-limiting conditions ([[YcnJ]], [[CsoR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/19168619 PubMed]
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' [[YcnJ]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/19168619 PubMed]
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
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=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
 +
 +
[[Mohamed Marahiel]], Marburg University, Germany [http://www.uni-marburg.de/fb15/fachgebiete/bio/marahiel?language_sync=1 homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
−
# Reizer et al. (1999) Novel phosphotransferase system genes revealed by genome analysis - the complete complement of PTS proteins encoded within the genome of ''Bacillus subtilis''. ''Microbiology'' '''145:''' 3419-3429 [http://www.ncbi.nlm.nih.gov/pubmed/10627040 PubMed]
+
# Chillappagari S, Miethke M, Trip H, Kuipers OP, Marahiel MA (2009) Copper acquisition is mediated by YcnJ and regulated by YcnK and CsoR in ''Bacillus subtilis''. ''J. Bacteriol.'' '''191:''' 2362-2370. [http://www.ncbi.nlm.nih.gov/sites/entrez/19168619 PubMed]
−
# Macek et al. (2007) The serine/ threonine/ tyrosine phosphoproteome of the model  bacterium ''Bacillus subtilis''. Mol. Cell. Proteomics 6: 697-707  [http://www.ncbi.nlm.nih.gov/pubmed/17218307 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 15:39, 15 April 2009

  • Description: copper transporter

Gene name ycnJ
Synonyms
Essential no
Product copper transporter
Function uptake of copper
MW, pI 59 kDa, 10.098
Gene length, protein length 1623 bp, 541 aa
Immediate neighbours ycnI, ycnK
Hier soll was neues rein
Genetic context
YcnJ context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

growth-defective under copper-limiting conditions PubMed

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: uptake of copper PubMed
  • 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: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Regulation: eightfold induction under copper-limiting conditions (YcnJ, CsoR) PubMed
  • Regulatory mechanism: YcnJ: transcription repression PubMed
  • Additional information:

Biological materials

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

Labs working on this gene/protein

Mohamed Marahiel, Marburg University, Germany homepage

Your additional remarks

References

  1. Chillappagari S, Miethke M, Trip H, Kuipers OP, Marahiel MA (2009) Copper acquisition is mediated by YcnJ and regulated by YcnK and CsoR in Bacillus subtilis. J. Bacteriol. 191: 2362-2370. PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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