Difference between revisions of "EfeO"

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* '''Description:''' write here <br/><br/>
+
* '''Description:''' lipoprotein, elemental iron uptake system (binding protein), high affinity uptake of ferric iron (Fe(III))  <br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' ||  
+
|style="background:#ABCDEF;" align="center"| '''Product''' || elemental iron uptake system (binding protein)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
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|style="background:#ABCDEF;" align="center"|'''Function''' || elemental iron 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=BSU38270 efeO]
 +
|-
 +
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/EfeO EfeO]
 +
|-
 +
|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=EfeO EfeO]'''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 42 kDa, 4.712   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 42 kDa, 4.712   
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1155 bp, 385 aa  
 
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1155 bp, 385 aa  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywbN]]'', ''[[ywbL]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[efeB]]'', ''[[efeU]]''
 
|-
 
|-
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ywbM_nucleotide.txt    Gene sequence     (+200bp)  ]'''
+
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU38270 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU38270 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU38270 DNA_with_flanks]
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ywbM_protein.txt Protein sequence]'''
 
 
|-
 
|-
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ywbM_context.gif]]
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ywbM_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=efeM_3927951_3929108_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ywbM_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU38270]]
 
|-
 
|-
 
|}
 
|}
  
 
__TOC__
 
__TOC__
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/>
  
−
<br/><br/>
+
= [[Categories]] containing this gene/protein =
 +
{{SubtiWiki category|[[transporters/ other]]}},
 +
{{SubtiWiki category|[[acquisition of iron]]}},
 +
{{SubtiWiki category|[[iron metabolism]]}},
 +
{{SubtiWiki category|[[membrane proteins]]}}
 +
 
 +
= This gene is a member of the following [[regulons]] =
 +
{{SubtiWiki regulon|[[Fur regulon]]}}
  
 
=The gene=
 
=The gene=
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=== Basic information ===
 
=== Basic information ===
  
−
* '''Coordinates:'''
+
* '''Locus tag:''' BSU38270
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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=== Additional information===
 
=== Additional information===
 +
 +
  
  
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* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
 +
** binds ferric iron (Fe(III)) with strong selectivity {{PubMed|23764491}}
  
−
* '''Protein family:'''
+
* '''Protein family:''' UPF0409 family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''[[SubtInteract|Interactions]]:'''
−
 
+
** [[EfeO]]-[[EfeU]]-[[EfeB]] {{PubMed|23180473,23764491}}
−
* '''Localization:'''
 
  
 +
* '''[[Localization]]:'''
 +
** membrane [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
 +
** extracytosolic lipoprotein {{PubMed|23764491}}
 
=== Database entries ===
 
=== Database entries ===
  
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:'''
+
* '''UniProt:''' [http://www.uniprot.org/uniprot/P39596 P39596]
  
−
* '''KEGG entry:'''
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU38270]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
 +
* '''Operon:'''
 +
** ''[[efeU]]-[[efeO]]-[[efeB]]'' {{PubMed|9353933}}
  
−
* '''Operon:'''  
+
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=efeM_3927951_3929108_-1 efeO] {{PubMed|22383849}}
  
−
* '''Sigma factor:'''  
+
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|23764491}}
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
 +
** induced upon iron starvation ([[Fur]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12354229 PubMed]
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
 +
** [[Fur]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12354229 PubMed]
  
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* '''Additional information:'''  
+
* '''Additional information:'''
 +
** number of protein molecules per cell (minimal medium with glucose and ammonium): 1047 {{PubMed|24696501}}
 +
** number of protein molecules per cell (complex medium with amino acids, without glucose): 2113 {{PubMed|24696501}}
  
 
=Biological materials =
 
=Biological materials =
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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>16672620,9353933,12354229,18763711, 23180473 23764491</pubmed>
 +
 
 +
[[Category:Protein-coding genes]]

Latest revision as of 11:24, 17 April 2014

  • Description: lipoprotein, elemental iron uptake system (binding protein), high affinity uptake of ferric iron (Fe(III))

Gene name ywbM
Synonyms ipa-28d
Essential no
Product elemental iron uptake system (binding protein)
Function elemental iron uptake
Gene expression levels in SubtiExpress: efeO
Interactions involving this protein in SubtInteract: EfeO
Metabolic function and regulation of this protein in SubtiPathways:
EfeO
MW, pI 42 kDa, 4.712
Gene length, protein length 1155 bp, 385 aa
Immediate neighbours efeB, efeU
Sequences Protein DNA DNA_with_flanks
Genetic context
YwbM context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
YwbM expression.png















Categories containing this gene/protein

transporters/ other, acquisition of iron, iron metabolism, membrane proteins

This gene is a member of the following regulons

Fur regulon

The gene

Basic information

  • Locus tag: BSU38270

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
    • binds ferric iron (Fe(III)) with strong selectivity PubMed
  • Protein family: UPF0409 family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

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

Additional information

Expression and regulation

  • Regulation:
  • Regulatory mechanism:
  • Additional information:
    • number of protein molecules per cell (minimal medium with glucose and ammonium): 1047 PubMed
    • number of protein molecules per cell (complex medium with amino acids, without glucose): 2113 PubMed

Biological materials

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

Labs working on this gene/protein

Your additional remarks

References

Marcus Miethke, Carmine G Monteferrante, Mohamed A Marahiel, Jan Maarten van Dijl
The Bacillus subtilis EfeUOB transporter is essential for high-affinity acquisition of ferrous and ferric iron.
Biochim Biophys Acta: 2013, 1833(10);2267-78
[PubMed:23764491] [WorldCat.org] [DOI] (P p)

Carmine G Monteferrante, Calum MacKichan, Elodie Marchadier, Maria-Victoria Prejean, Rut Carballido-López, Jan Maarten van Dijl
Mapping the twin-arginine protein translocation network of Bacillus subtilis.
Proteomics: 2013, 13(5);800-11
[PubMed:23180473] [WorldCat.org] [DOI] (I p)

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)

Juliane Ollinger, Kyung-Bok Song, Haike Antelmann, Michael Hecker, John D Helmann
Role of the Fur regulon in iron transport in Bacillus subtilis.
J Bacteriol: 2006, 188(10);3664-73
[PubMed:16672620] [WorldCat.org] [DOI] (P p)

Noel Baichoo, Tao Wang, Rick Ye, John D Helmann
Global analysis of the Bacillus subtilis Fur regulon and the iron starvation stimulon.
Mol Microbiol: 2002, 45(6);1613-29
[PubMed:12354229] [WorldCat.org] [DOI] (P p)

E Presecan, I Moszer, L Boursier, H Cruz Ramos, V de la Fuente, M-F Hullo, C Lelong, S Schleich, A Sekowska, B H Song, G Villani, F Kunst, A Danchin, P Glaser
The Bacillus subtilis genome from gerBC (311 degrees) to licR (334 degrees).
Microbiology (Reading): 1997, 143 ( Pt 10);3313-3328
[PubMed:9353933] [WorldCat.org] [DOI] (P p)

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