Difference between revisions of "ThiU"

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* '''Description:''' write here <br/><br/>
+
* '''Description:''' thiamine [[ABC transporter]] (binding protein) <br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykoF''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykoF''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' ||  
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' ||  
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|style="background:#ABCDEF;" align="center"| '''Product''' || thiamine [[ABC transporter]] (binding protein)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+
|style="background:#ABCDEF;" align="center"|'''Function''' || thiamine uptake
 +
|-
 +
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13240 thiU]
 +
|-
 +
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=ThiU ThiU]
 +
|-
 +
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=thiU thiU]'''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 6.046   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 6.046   
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 600 bp, 200 aa  
 
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 600 bp, 200 aa  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' ||  
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[thiV]]'', ''[[ykoG]]''
 
|-
 
|-
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ykoF_nucleotide.txt    Gene sequence     (+200bp)  ]'''
+
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13240 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13240 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13240 DNA_with_flanks]
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ykoF_protein.txt Protein sequence]'''
 
 
|-
 
|-
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ykoF_context.gif]]
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ykoF_context.gif]]
 +
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 +
|-
 +
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=thiU_1391040_1391642_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:thiU_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13240]]
 
|-
 
|-
 
|}
 
|}
  
 
__TOC__
 
__TOC__
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
  
−
<br/><br/>
+
 
 +
<br/><br/><br/><br/><br/><br/>
 +
 
 +
= [[Categories]] containing this gene/protein =
 +
{{SubtiWiki category|[[ABC transporters]]}},
 +
{{SubtiWiki category|[[biosynthesis of cofactors]]}},
 +
{{SubtiWiki category|[[membrane proteins]]}}
 +
 
 +
= This gene is a member of the following [[regulons]] =
 +
{{SubtiWiki regulon|[[Thi-box]]}}
  
 
=The gene=
 
=The gene=
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=== Basic information ===
 
=== Basic information ===
  
−
* '''Coordinates:'''
+
* '''Locus tag:''' BSU13240
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU13240&redirect=T BSU13240]
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ykoF.html]
+
* '''DBTBS entry:''' no entry
  
 
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13251]
 
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13251]
  
 
=== Additional information===
 
=== Additional information===
 +
 +
  
  
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''[[SubtInteract|Interactions]]:'''
 +
** [[ThiW]]-([[ThiV]]-[[ThiX]])-[[ThiU]] {{PubMed|16291685}}
  
−
* '''Localization:'''
+
* '''[[Localization]]:''' membrane associated (via [[ThiV]]-[[ThiX]]) {{PubMed|16291685}}
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU13240&redirect=T BSU13240]
  
−
* '''Structure:'''
+
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1SBR 1SBR] (complex with thiamine),  [http://www.rcsb.org/pdb/explore.do?structureId=1S99 1S99]
  
−
* '''Swiss prot entry:'''
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* '''UniProt:''' [http://www.uniprot.org/uniprot/O34911 O34911]
  
−
* '''KEGG entry:'''
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13240]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
 +
* '''Operon:''' ''[[thiU]]-[[thiV]]-[[thiW]]-[[thiX]]'' {{PubMed|16291685}}
  
−
* '''Operon:'''  
+
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=thiU_1391040_1391642_-1 thiU] {{PubMed|22383849}}
  
 
* '''Sigma factor:'''  
 
* '''Sigma factor:'''  
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
 +
** repressed by thiamine ([[Thi-box]]) {{PubMed|12376536}}
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
 +
** [[Thi-box]]: [[RNA switch]] {{PubMed|12376536}}
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
 +
** number of protein molecules per cell (minimal medium with glucose and ammonium): 257 {{PubMed|24696501}}
 +
** number of protein molecules per cell (complex medium with amino acids, without glucose): 745 {{PubMed|24696501}}
 +
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 1463 {{PubMed|21395229}}
 +
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 433 {{PubMed|21395229}}
 +
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 540 {{PubMed|21395229}}
  
 
=Biological materials =
 
=Biological materials =
−
 
 
* '''Mutant:'''
 
* '''Mutant:'''
  
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=References=
 
=References=
  
−
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
+
<pubmed>16291685,12376536 ,15451668, </pubmed>
 +
 
 +
[[Category:Protein-coding genes]]

Latest revision as of 14:18, 17 April 2014

Gene name thiU
Synonyms ykoF
Essential no
Product thiamine ABC transporter (binding protein)
Function thiamine uptake
Gene expression levels in SubtiExpress: thiU
Interactions involving this protein in SubtInteract: ThiU
Metabolic function and regulation of this protein in SubtiPathways:
thiU
MW, pI 21 kDa, 6.046
Gene length, protein length 600 bp, 200 aa
Immediate neighbours thiV, ykoG
Sequences Protein DNA DNA_with_flanks
Genetic context
YkoF context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
ThiU expression.png




























Categories containing this gene/protein

ABC transporters, biosynthesis of cofactors, membrane proteins

This gene is a member of the following regulons

Thi-box

The gene

Basic information

  • Locus tag: BSU13240

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:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:

Database entries

  • Structure: 1SBR (complex with thiamine), 1S99
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Sigma factor:
  • Additional information:
    • number of protein molecules per cell (minimal medium with glucose and ammonium): 257 PubMed
    • number of protein molecules per cell (complex medium with amino acids, without glucose): 745 PubMed
    • number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 1463 PubMed
    • number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 433 PubMed
    • number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 540 PubMed

Biological materials

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

Labs working on this gene/protein

Your additional remarks

References

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