Difference between revisions of "Sandbox"

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* '''Description:''' lichenan-specific phosphotransferase system, EIIC component <br/><br/>
+
* '''Description:''' glucomannan-specific phosphotransferase system, EIIB component <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'''
−
|''licC''
+
|''gmuB''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''celB ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ydhM''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || lichenan-specific phosphotransferase system, <br/>EIIC component
+
|style="background:#ABCDEF;" align="center"| '''Product''' || glucomannan-specific phosphotransferase system, <br/>EIIB component  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || lichenan uptake and phosphorylation
+
|style="background:#ABCDEF;" align="center"|'''Function''' || glucomannan uptake and phosphorylation
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 48 kDa, 8.584  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 11 kDa, 4.724  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1356 bp, 452 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 309 bp, 103 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[licA]]'', ''[[licB]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pbuE]]'', ''[[gmuA]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/licC_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ydhM_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/licC_protein.txt Protein sequence]'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ydhM_protein.txt Protein sequence]'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:licC_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:ydhM_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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* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11348]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12190]
  
 
=== Additional information===
 
=== Additional information===
Line 81: Line 81:
 
* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU38580]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU05810]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 89: Line 89:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[licB]]-[[licC]]-[[licA]]-[[licH]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/8990303 PubMed]
+
* '''Operon:''' ''[[gmuB]]-[[gmuA]]-[[gmuC]]-[[gmuD]]-[[gmuR]]-[[gmuE]]-[[gmuF]]-[[gmuG]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/18177310 PubMed]
  
−
* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/8990303 PubMed]
+
* '''Sigma factor:''' [[SigA]]
  
−
* '''Regulation:''' repressed by glucose ([[CcpA]]) ,  carbon catabolite repression, induction by oligomeric ß-glucosides [http://www.ncbi.nlm.nih.gov/sites/entrez/8990303 PubMed]
+
* '''Regulation:'''  
  
−
* '''Regulatory mechanism:''' [[CcpA]]: transcription repression,  catabolite repression: repression by [[CcpA]], induction: transcription activation by the PRD-type regulator [[LicR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/8990303 PubMed]
+
* '''Regulatory mechanism:'''  
  
 
* '''Additional information:'''
 
* '''Additional information:'''
Line 120: Line 120:
  
 
# 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]
 
# 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]
−
 
+
# Sadaie Y, Nakadate H, Fukui R, Yee LM, Asai K. (2008) Glucomannan utilization operon of Bacillus subtilis. ''FEMS Microbiol Lett.'' '''Feb;279(1):''' 103-9. [http://www.ncbi.nlm.nih.gov/sites/entrez/18177310 PubMed]
−
# Tobisch, S., P. Glaser, S. Krüger, and M. Hecker. 1997. Identification and characterization of a new ß-glucoside utilization system in ''Bacillus subtilis''. J. Bacteriol. 179:496-506. [http://www.ncbi.nlm.nih.gov/sites/entrez/8990303 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 11:58, 6 April 2009

  • Description: glucomannan-specific phosphotransferase system, EIIB component

Gene name gmuB
Synonyms ydhM
Essential no
Product glucomannan-specific phosphotransferase system,
EIIB component
Function glucomannan uptake and phosphorylation
MW, pI 11 kDa, 4.724
Gene length, protein length 309 bp, 103 aa
Immediate neighbours pbuE, gmuA
Gene sequence (+200bp) Protein sequence
Genetic context
YdhM context.gif
This image was kindly provided by SubtiList




The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family: PTS permease, lactose permease (Lac) family PubMed
  • 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

  • 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. 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 PubMed
  2. Sadaie Y, Nakadate H, Fukui R, Yee LM, Asai K. (2008) Glucomannan utilization operon of Bacillus subtilis. FEMS Microbiol Lett. Feb;279(1): 103-9. PubMed
  3. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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