RibU

• Description: riboflavin ECF transporter, S protein
  
  

Gene name	ribU
Synonyms	ypaA
Essential	no
Product	S protein of riboflavin ECF transporter
Function	riboflavin uptake
Gene expression levels in SubtiExpress: ribU
Interactions involving this protein in SubtInteract: RibU
Metabolic function and regulation of this protein in SubtiPathways: ribU
MW, pI	20 kDa, 10.12
Gene length, protein length	570 bp, 190 aa
Immediate neighbours	fer, ypzE
Sequences	Protein DNA DNA_with_flanks
Genetic context This image was kindly provided by SubtiList
Expression at a glance   PubMed 500px

Categories containing this gene/protein

ECF transporter, biosynthesis of cofactors, membrane proteins

This gene is a member of the following regulons

FMN-box

The gene

Basic information

• Locus tag: BSU23050

Database entries

• BsubCyc: BSU23050

• DBTBS entry: no entry

• SubtiList entry: [1]

The protein

Basic information/ Evolution

• Catalyzed reaction/ biological activity:

• Protein family:

• Paralogous protein(s):

Extended information on the protein

• Kinetic information:

• Domains:

• Modification:

• Cofactors:

• Effectors of protein activity:

• Interactions:
  • YbaF-RibU PubMed

• Localization: membrane

Database entries

• BsubCyc: BSU23050

• Structure: 3P5N (RibU from Staphylococcus aureus)

• UniProt: P50726

• KEGG entry: [2]

• E.C. number:

Expression and regulation

• Operon: ribU PubMed
  • there is a promoter directly in front of ribU PubMed

• Expression browser: ribU PubMed

• Sigma factor:

• Regulation: expressed in the absence of FMN (FMN-box) PubMed

• Regulatory mechanism: FMN-box: riboswitch, controls access of the ribosome to the Shine-Dalgarno sequence PubMed

• Additional information:
  • the mRNA is substantially stabilized upon depletion of RNase Y PubMed

Biological materials

• Mutant:

• Expression vector:

• lacZ fusion:

• GFP fusion:

• two-hybrid system:

• Antibody:

References

Reviews

Dirk J Slotboom
Structural and mechanistic insights into prokaryotic energy-coupling factor transporters.
Nat Rev Microbiol: 2014, 12(2);79-87
[PubMed:24362466] [WorldCat.org] [DOI] (I p)

Guus B Erkens, Maria Majsnerowska, Josy ter Beek, Dirk Jan Slotboom
Energy coupling factor-type ABC transporters for vitamin uptake in prokaryotes.
Biochemistry: 2012, 51(22);4390-6
[PubMed:22574898] [WorldCat.org] [DOI] (I p)

Thomas Eitinger, Dmitry A Rodionov, Mathias Grote, Erwin Schneider
Canonical and ECF-type ATP-binding cassette importers in prokaryotes: diversity in modular organization and cellular functions.
FEMS Microbiol Rev: 2011, 35(1);3-67
[PubMed:20497229] [WorldCat.org] [DOI] (I p)

Original publications

S A Sklyarova, A S Mironov
[Bacillus subtilis ypaA gene regulation mechanism involves FMN-binding sensor RNA].
Genetika: 2014, 50(3);364-8
[PubMed:25438558] [WorldCat.org] (P p)

Jennifer Frommer, Robert Hieronymus, Tamil Selvi Arunachalam, Sabine Heeren, Maria Jenckel, Anne Strahl, Bettina Appel, Sabine Müller
Preparation of modified long-mer RNAs and analysis of FMN binding to the ypaA aptamer from B. subtilis.
RNA Biol: 2014, 11(5);609-23
[PubMed:24755604] [WorldCat.org] [DOI] (I p)

Jianing Song, Changge Ji, John Z H Zhang
Unveiling the gating mechanism of ECF transporter RibU.
Sci Rep: 2013, 3;3566
[PubMed:24356467] [WorldCat.org] [DOI] (I e)

Martin Lehnik-Habrink, Marc Schaffer, Ulrike Mäder, Christine Diethmaier, Christina Herzberg, Jörg Stülke
RNA processing in Bacillus subtilis: identification of targets of the essential RNase Y.
Mol Microbiol: 2011, 81(6);1459-73
[PubMed:21815947] [WorldCat.org] [DOI] (I p)

Peng Zhang, Jiawei Wang, Yigong Shi
Structure and mechanism of the S component of a bacterial ECF transporter.
Nature: 2010, 468(7324);717-20
[PubMed:20972419] [WorldCat.org] [DOI] (I p)

Christian Vogl, Simon Grill, Oliver Schilling, Jörg Stülke, Matthias Mack, Jürgen Stolz
Characterization of riboflavin (vitamin B2) transport proteins from Bacillus subtilis and Corynebacterium glutamicum.
J Bacteriol: 2007, 189(20);7367-75
[PubMed:17693491] [WorldCat.org] [DOI] (P p)

Wade C Winkler, Smadar Cohen-Chalamish, Ronald R Breaker
An mRNA structure that controls gene expression by binding FMN.
Proc Natl Acad Sci U S A: 2002, 99(25);15908-13
[PubMed:12456892] [WorldCat.org] [DOI] (P p)