Difference between revisions of "Sandbox"

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−
* '''Description:''' ribose ABC transporter (binding protein) <br/><br/>
+
* '''Description:''' ribokinase <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'''
−
|''rbsB''
+
|''rbsK''
 
|-
 
|-
 
|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''' || ribose ABC transporter (binding protein)
+
|style="background:#ABCDEF;" align="center"| '''Product''' || ribokinase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || ribose uptake
+
|style="background:#ABCDEF;" align="center"|'''Function''' || ribose utilization
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 32 kDa, 6.138  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 30 kDa, 4.61  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 915 bp, 305 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 879 bp, 293 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rbsC]]'', ''[[ywsB]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rbsR]]'', ''[[rbsD]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15613&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15609&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:rbsB_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:rbsK_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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=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU35960
+
* '''Locus tag:''' BSU35920
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rbsRKDACB.html]
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rbsRKDACB.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10881]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10877]
  
 
=== Additional information===
 
=== Additional information===
Line 52: Line 52:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' ATP + D-ribose = ADP + D-ribose 5-phosphate (according to Swiss-Prot)
  
−
* '''Protein family:''' bacterial solute-binding protein 2 family (according to Swiss-Prot)
+
* '''Protein family:''' carbohydrate kinase pfkB family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
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* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:''' cell membrane (according to Swiss-Prot),  extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
+
* '''Localization:''' cytoplasm (according to Swiss-Prot)
  
 
=== Database entries ===
 
=== Database entries ===
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* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P36949 P36949]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P36945 P36945]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU35960]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU35920]
  
−
* '''E.C. number:'''
+
* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.1.15 2.7.1.15]
  
 
=== Additional information===
 
=== Additional information===
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=References=
 
=References=
  
−
<pubmed>18957862 7921236, </pubmed>
+
<pubmed>7921236, </pubmed>
−
# Voigt et al. (2009) Cell physiology and protein secretion of ''Bacillus licheniformis'' compared to ''Bacillus subtilis''. ''J Mol Microbiol Biotechnol.'' '''16:''' 53-68 [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
 
 
# Woodson K, Devine KM. (1994) Analysis of a ribose transport operon from Bacillus subtilis. ''Microbiology. '' '''Aug;140 ( Pt 8):''' 1829-38. [http://www.ncbi.nlm.nih.gov/sites/entrez/7921236 PubMed]
 
# Woodson K, Devine KM. (1994) Analysis of a ribose transport operon from Bacillus subtilis. ''Microbiology. '' '''Aug;140 ( Pt 8):''' 1829-38. [http://www.ncbi.nlm.nih.gov/sites/entrez/7921236 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 13:32, 8 June 2009

  • Description: ribokinase

Gene name rbsK
Synonyms
Essential no
Product ribokinase
Function ribose utilization
MW, pI 30 kDa, 4.61
Gene length, protein length 879 bp, 293 aa
Immediate neighbours rbsR, rbsD
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
RbsK context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU35920

Phenotypes of a mutant

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: ATP + D-ribose = ADP + D-ribose 5-phosphate (according to Swiss-Prot)
  • Protein family: carbohydrate kinase pfkB family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization: cytoplasm (according to Swiss-Prot)

Database entries

  • Structure:
  • KEGG entry: [3]

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

K Woodson, K M Devine
Analysis of a ribose transport operon from Bacillus subtilis.
Microbiology (Reading): 1994, 140 ( Pt 8);1829-38
[PubMed:7921236] [WorldCat.org] [DOI] (P p)

  1. Woodson K, Devine KM. (1994) Analysis of a ribose transport operon from Bacillus subtilis. Microbiology. Aug;140 ( Pt 8): 1829-38. PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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