Difference between revisions of "YydA"

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|style="background:#ABCDEF;" align="center"|'''Function''' || may be involved in maturation of 23S rRNA
 
|style="background:#ABCDEF;" align="center"|'''Function''' || may be involved in maturation of 23S rRNA
 
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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/BSU40230 yydA]
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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=BSU40230 yydA]
 
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 9.314   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 9.314   
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yydB]]'', ''[[yyzF]]''
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yydB]]'', ''[[yyzF]]''
 
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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:CAB16060&#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=BSU40230 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU40230 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU40230 Advanced_DNA]
 
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|colspan="2" | '''Genetic context''' <br/> [[Image:yydA_context.gif]]
 
|colspan="2" | '''Genetic context''' <br/> [[Image:yydA_context.gif]]

Revision as of 14:18, 13 May 2013

  • Description: similar to pseudouridine methyltransferase

Gene name yydA
Synonyms
Essential no
Product similar to pseudouridine methyltransferase
Function may be involved in maturation of 23S rRNA
Gene expression levels in SubtiExpress: yydA
MW, pI 17 kDa, 9.314
Gene length, protein length 477 bp, 159 aa
Immediate neighbours yydB, yyzF
Sequences Protein DNA Advanced_DNA
Genetic context
YydA context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
YydA expression.png
























Categories containing this gene/protein

translation

This gene is a member of the following regulons

DnaA regulon

The gene

Basic information

  • Locus tag: BSU40230

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: S-adenosyl-L-methionine + rRNA = S-adenosyl-L-homocysteine + rRNA containing N3-methylpseudouridine (according to Swiss-Prot)
  • Protein family: RNA methyltransferase rlmH family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization: cytoplasm (according to Swiss-Prot)

Database entries

  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Sigma factor:
  • Regulation:
  • Regulatory mechanism:
  • 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

Additional publications: PubMed

Rya Ero, Lauri Peil, Aivar Liiv, Jaanus Remme
Identification of pseudouridine methyltransferase in Escherichia coli.
RNA: 2008, 14(10);2223-33
[PubMed:18755836] [WorldCat.org] [DOI] (I p)

Elzbieta Purta, Katarzyna H Kaminska, Joanna M Kasprzak, Janusz M Bujnicki, Stephen Douthwaite
YbeA is the m3Psi methyltransferase RlmH that targets nucleotide 1915 in 23S rRNA.
RNA: 2008, 14(10);2234-44
[PubMed:18755835] [WorldCat.org] [DOI] (I p)

Shu Ishikawa, Yoshitoshi Ogura, Mika Yoshimura, Hajime Okumura, Eunha Cho, Yoshikazu Kawai, Ken Kurokawa, Taku Oshima, Naotake Ogasawara
Distribution of stable DnaA-binding sites on the Bacillus subtilis genome detected using a modified ChIP-chip method.
DNA Res: 2007, 14(4);155-68
[PubMed:17932079] [WorldCat.org] [DOI] (P p)