Difference between revisions of "Sandbox"
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| − | * '''Description:''' dipeptide ABC transporter ( | + | * '''Description:''' dipeptide ABC transporter (dipeptide-binding protein) <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''' | ||
| − | |'' | + | |''dppE'' |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' | + | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''dciAE '' |
|- | |- | ||
|style="background:#ABCDEF;" align="center"| '''Essential''' || no | |style="background:#ABCDEF;" align="center"| '''Essential''' || no | ||
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Product''' || dipeptide ABC transporter ( | + | |style="background:#ABCDEF;" align="center"| '''Product''' || dipeptide ABC transporter (dipeptide-binding protein) |
|- | |- | ||
| − | |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''' || | + | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 62 kDa, 5.523 |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || | + | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1647 bp, 549 aa |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ | + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dppD]]'', ''[[ykfA]]'' |
|- | |- | ||
| − | |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS: | + | |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13153]+-newId sequences] <br/> (Barbe ''et al.'', 2009)''' |
|- | |- | ||
| − | |colspan="2" | '''Genetic context''' <br/> [[Image: | + | |- |
| + | |- | ||
| + | |colspan="2" | '''Genetic context''' <br/> [[Image:dppE_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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__TOC__ | __TOC__ | ||
| − | <br/><br/> | + | <br/><br/><br/><br/> |
=The gene= | =The gene= | ||
| Line 35: | Line 37: | ||
=== Basic information === | === Basic information === | ||
| − | * '''Locus tag:''' | + | * '''Locus tag:''' BSU12960 |
===Phenotypes of a mutant === | ===Phenotypes of a mutant === | ||
| Line 43: | Line 45: | ||
* '''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+ | + | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10846] |
=== Additional information=== | === Additional information=== | ||
| Line 54: | Line 56: | ||
* '''Catalyzed reaction/ biological activity:''' | * '''Catalyzed reaction/ biological activity:''' | ||
| − | * '''Protein family:''' | + | * '''Protein family:''' bacterial solute-binding protein 5 family (according to Swiss-Prot) |
| − | * '''Paralogous protein(s):''' | + | * '''Paralogous protein(s):''' [[OppA]] |
=== Extended information on the protein === | === Extended information on the protein === | ||
| Line 62: | Line 64: | ||
* '''Kinetic information:''' | * '''Kinetic information:''' | ||
| − | * '''Domains:''' | + | * '''Domains:''' |
* '''Modification:''' | * '''Modification:''' | ||
| Line 72: | Line 74: | ||
* '''Interactions:''' | * '''Interactions:''' | ||
| − | * '''Localization:''' | + | * '''Localization:''' membrane protein [http://www.ncbi.nlm.nih.gov/sites/entrez/18763711 PubMed] |
=== Database entries === | === Database entries === | ||
| Line 78: | Line 80: | ||
* '''Structure:''' | * '''Structure:''' | ||
| − | * '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/ | + | * '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P26906 P26906] |
| − | * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+ | + | * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU12960] |
* '''E.C. number:''' | * '''E.C. number:''' | ||
| Line 100: | Line 102: | ||
=Biological materials = | =Biological materials = | ||
| − | * '''Mutant:''' | + | * '''Mutant:''' GP1110 (spc), available in [[Stülke]] lab |
* '''Expression vector:''' | * '''Expression vector:''' | ||
| Line 118: | Line 120: | ||
=References= | =References= | ||
| + | <pubmed>18763711, </pubmed> | ||
| + | # Hahne et al. (2008) From complementarity to comprehensiveness - targeting the membrane proteome of growing ''Bacillus subtilis'' by divergent approaches. Proteomics '''8:''' 4123-4136 [http://www.ncbi.nlm.nih.gov/pubmed/18763711 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 20:37, 10 June 2009
- Description: dipeptide ABC transporter (dipeptide-binding protein)
| Gene name | dppE |
| Synonyms | dciAE |
| Essential | no |
| Product | dipeptide ABC transporter (dipeptide-binding protein) |
| Function | uptake of dipeptides |
| MW, pI | 62 kDa, 5.523 |
| Gene length, protein length | 1647 bp, 549 aa |
| Immediate neighbours | dppD, ykfA |
| Get the DNA and protein sequences (Barbe et al., 2009) | |
Genetic context 
This image was kindly provided by SubtiList
| |
Contents
The gene
Basic information
- Locus tag: BSU12960
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: bacterial solute-binding protein 5 family (according to Swiss-Prot)
- Paralogous protein(s): OppA
Extended information on the protein
- Kinetic information:
- Domains:
- Modification:
- Cofactor(s):
- Effectors of protein activity:
- Interactions:
- Localization: membrane protein PubMed
Database entries
- Structure:
- Swiss prot entry: P26906
- KEGG entry: [3]
- E.C. number:
Additional information
Expression and regulation
- Regulation: repressed during logrithmic growth (AbrB) PubMed expressed postexponentially (AbrB) PubMed, repressed by CodY PubMed
- Regulatory mechanism: AbrB: transcription repression PubMed AbrB: transcription repression PubMed, CodY: transcription repression PubMed
- Additional information:
Biological materials
- Mutant: GP1110 (spc), available in Stülke lab
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system:
- Antibody:
Labs working on this gene/protein
Your additional remarks
References
Hannes Hahne, Susanne Wolff, Michael Hecker, Dörte Becher
From complementarity to comprehensiveness--targeting the membrane proteome of growing Bacillus subtilis by divergent approaches.
Proteomics: 2008, 8(19);4123-36
[PubMed:18763711]
[WorldCat.org]
[DOI]
(I p)
