Difference between revisions of "YcbK"

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|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 
|-
 
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|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU02540 ycbK]
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|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=BSU02540 ycbK]
 
|-
 
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|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/phenyl_tyr_tryp.html Phe, Tyr, Trp]'''
 
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/phenyl_tyr_tryp.html Phe, Tyr, Trp]'''
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rtpA]]'', ''[[ycbL]]''
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rtpA]]'', ''[[ycbL]]''
 
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|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12048&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
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|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU02540 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU02540 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU02540 Advanced_DNA]
 
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Revision as of 12:03, 13 May 2013

  • Description: similar to efflux system

Gene name ycbK
Synonyms
Essential no
Product unknown
Function unknown
Gene expression levels in SubtiExpress: ycbK
Metabolic function and regulation of this protein in SubtiPathways:
Phe, Tyr, Trp
MW, pI 33 kDa, 9.572
Gene length, protein length 936 bp, 312 aa
Immediate neighbours rtpA, ycbL
Sequences Protein DNA Advanced_DNA
Genetic context
YcbK context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
YcbK expression.png




























Categories containing this gene/protein

transporters/ other, membrane proteins

This gene is a member of the following regulons

T-box, TRAP regulon

The gene

Basic information

  • Locus tag: BSU02540

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: DUF6 domain (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: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Regulation:
    • rtpA: induced by tryptophan limitation (T-box in the mRNA leader) PubMed
    • ycbK: induced by tryptophan limitation (MtrB in the mRNA leader) PubMed
  • Regulatory mechanism:
    • T-box: transcription termination/ antitermination PubMed
    • MtrB: control of translation initiation (access of the ribosome to the Shine-Dalgarno sequence) PubMed
  • Additional information:

Biological materials

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

Labs working on this gene/protein

Your additional remarks

References

Ana Gutiérrez-Preciado, Tina M Henkin, Frank J Grundy, Charles Yanofsky, Enrique Merino
Biochemical features and functional implications of the RNA-based T-box regulatory mechanism.
Microbiol Mol Biol Rev: 2009, 73(1);36-61
[PubMed:19258532] [WorldCat.org] [DOI] (I p)

Helen Yakhnin, Alexander V Yakhnin, Paul Babitzke
The trp RNA-binding attenuation protein (TRAP) of Bacillus subtilis regulates translation initiation of ycbK, a gene encoding a putative efflux protein, by blocking ribosome binding.
Mol Microbiol: 2006, 61(5);1252-66
[PubMed:16879415] [WorldCat.org] [DOI] (P p)

J P Sarsero, E Merino, C Yanofsky
A Bacillus subtilis operon containing genes of unknown function senses tRNATrp charging and regulates expression of the genes of tryptophan biosynthesis.
Proc Natl Acad Sci U S A: 2000, 97(6);2656-61
[PubMed:10706627] [WorldCat.org] [DOI] (P p)