Difference between revisions of "ThiW"

From SubtiWiki
Jump to: navigation, search
 
(34 intermediate revisions by 6 users not shown)
Line 1: Line 1:
−
* '''Description:''' thiamine ABC transporter (ATP-binding protein) <br/><br/>
+
* '''Description:''' thiamine [[ABC transporter]] (ATP-binding protein) <br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
Line 10: Line 10:
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || thiamine ABC transporter (ATP-binding protein)  
+
|style="background:#ABCDEF;" align="center"| '''Product''' || thiamine [[ABC transporter]] (ATP-binding protein)  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Function''' || thiamine uptake
 
|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=BSU13220 thiW]
 +
|-
 +
|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=ThiW ThiW]
 +
|-
 +
|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=thiW thiW]'''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 54 kDa, 5.708   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 54 kDa, 5.708   
Line 20: Line 26:
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[thiX]]'', ''[[thiV]]''
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[thiX]]'', ''[[thiV]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ykoD_nucleotide.txt    Gene sequence     (+200bp)  ]'''
+
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13220 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13220 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13220 DNA_with_flanks]
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ykoD_protein.txt Protein sequence]'''
+
|-
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;color:#FF0000" align="center" | '''Caution: The sequence for this gene in SubtiList contains errors
 
 
|-
 
|-
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ykoD_context.gif]]
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ykoD_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>
 +
|-
 +
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=thiW_1388809_1390452_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:thiW_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13220]]
 
|-
 
|-
 
|}
 
|}
  
 
__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=
Line 38: Line 59:
 
=== Basic information ===
 
=== Basic information ===
  
−
* '''Coordinates:'''
+
* '''Locus tag:''' BSU13220
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU13220&redirect=T BSU13220]
  
 
* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
Line 49: Line 71:
  
 
=== Additional information===
 
=== Additional information===
 +
 +
  
  
Line 57: Line 81:
 
* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:'''
+
* '''Protein family:''' [[ABC transporter]] family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
Line 73: Line 97:
 
* '''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=BSU13220&redirect=T BSU13220]
  
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:'''
+
* '''UniProt:''' [http://www.uniprot.org/uniprot/O34362 O34362]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU13220]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13220]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 90: Line 116:
  
 
=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=thiW_1388809_1390452_-1 thiW] {{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 (complex medium with amino acids, without glucose): 643 {{PubMed|24696501}}
  
 
=Biological materials =
 
=Biological materials =
Line 121: Line 151:
 
=References=
 
=References=
  
−
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
+
<pubmed>10092453,16291685,12376536, </pubmed>
 +
 
 +
[[Category:Protein-coding genes]]

Latest revision as of 10:10, 17 April 2014

Gene name thiW
Synonyms ykoD
Essential no
Product thiamine ABC transporter (ATP-binding protein)
Function thiamine uptake
Gene expression levels in SubtiExpress: thiW
Interactions involving this protein in SubtInteract: ThiW
Metabolic function and regulation of this protein in SubtiPathways:
thiW
MW, pI 54 kDa, 5.708
Gene length, protein length 1470 bp, 490 aa
Immediate neighbours thiX, thiV
Sequences Protein DNA DNA_with_flanks
Genetic context
YkoD context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
ThiW 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: BSU13220

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

  • Structure:
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Sigma factor:
  • Additional information:
    • number of protein molecules per cell (complex medium with amino acids, without glucose): 643 PubMed

Biological materials

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

Labs working on this gene/protein

Your additional remarks

References

Ghislain Schyns, Sébastien Potot, Yi Geng, Teresa M Barbosa, Adriano Henriques, John B Perkins
Isolation and characterization of new thiamine-deregulated mutants of Bacillus subtilis.
J Bacteriol: 2005, 187(23);8127-36
[PubMed:16291685] [WorldCat.org] [DOI] (P p)

Dmitry A Rodionov, Alexey G Vitreschak, Andrey A Mironov, Mikhail S Gelfand
Comparative genomics of thiamin biosynthesis in procaryotes. New genes and regulatory mechanisms.
J Biol Chem: 2002, 277(50);48949-59
[PubMed:12376536] [WorldCat.org] [DOI] (P p)

Y Quentin, G Fichant, F Denizot
Inventory, assembly and analysis of Bacillus subtilis ABC transport systems.
J Mol Biol: 1999, 287(3);467-84
[PubMed:10092453] [WorldCat.org] [DOI] (P p)

Retrieved from "https://subtiwiki.uni-goettingen.de/wiki//index.php?title=ThiW&oldid=204189"