Difference between revisions of "Sandbox"

From SubtiWiki
Jump to: navigation, search
Line 4: Line 4:
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''dppB''
+
|''dppC''
 
|-
 
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''dciAB ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''dciAC ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
Line 14: Line 14:
 
|style="background:#ABCDEF;" align="center"|'''Function''' || uptake of dipeptides  
 
|style="background:#ABCDEF;" align="center"|'''Function''' || uptake of dipeptides  
 
|-
 
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33 kDa, 9.942  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 9.813  
 
|-
 
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 924 bp, 308 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 960 bp, 320 aa  
 
|-
 
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dppA]]'', ''[[dppC]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dppB]]'', ''[[dppD]]''
 
|-
 
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13150&#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:CAB13151&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
|colspan="2" | '''Genetic context''' <br/> [[Image:dppB_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:dppC_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>
 
|-
 
|-
Line 35: Line 35:
 
=== Basic information ===
 
=== Basic information ===
  
* '''Locus tag:''' BSU12930
+
* '''Locus tag:''' BSU12940
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
Line 43: Line 43:
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/dppABCDE.html]
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/dppABCDE.html]
  
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10843]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10844]
  
 
=== Additional information===
 
=== Additional information===
Line 78: Line 78:
 
* '''Structure:'''
 
* '''Structure:'''
  
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P26903 P26903]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P26904 P26904]
  
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU12930]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU12940]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 92: Line 92:
 
* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/1766371 PubMed]
 
* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/1766371 PubMed]
  
* <_sre.SRE_Match object at 0x018AC0C8> repressed during logrithmic growth ([[AbrB]]) expressed postexponentially ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1766371 PubMed], repressed by [[CodY]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed]
+
* <_sre.SRE_Match object at 0x019BD2F8> repressed during logrithmic growth ([[AbrB]]) expressed postexponentially ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1766371 PubMed], repressed by [[CodY]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed]
  
 
* '''Regulatory mechanism:''' [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1766371 PubMed], [[CodY]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed]   
 
* '''Regulatory mechanism:''' [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1766371 PubMed], [[CodY]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed]   

Revision as of 18:54, 10 June 2009

  • Description: dipeptide ABC transporter (permease)

Gene name dppC
Synonyms dciAC
Essential no
Product dipeptide ABC transporter (permease)
Function uptake of dipeptides
MW, pI 35 kDa, 9.813
Gene length, protein length 960 bp, 320 aa
Immediate neighbours dppB, dppD
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
DppC context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU12940

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: ABC transmembrane type-1 domain (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

  • Structure:
  • KEGG entry: [3]
  • E.C. number:

Additional information

Expression and regulation

  • <_sre.SRE_Match object at 0x019BD2F8> repressed during logrithmic growth (AbrB) expressed postexponentially (AbrB) PubMed, repressed by CodY PubMed
  • Regulatory mechanism: AbrB: transcription repression PubMed, CodY: transcription repression PubMed
  • 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