SubtiBank SubtiBank
yydG
You are currently viewing an outdated version of SubtiWiki. Please use the newest version!

yydG

radical SAM epimerase, modification of [protein|D66B9BFF79ADD8B0F9BFA3892FCF4597264CE9EE|YydF]
locus
BSU_40170
pI
5.86
mw
37.06 kDa
protein length
319 aa Sequence Blast
gene length
960 bp Sequence Blast
function
control of [protein|49E70A20CC05DBE485953C0AE34E634EFB33C3B2|LiaR]-[protein|9A1871BD853254EEA8B4E78CA187F9315CBDF43D|LiaS] activity
product
radical SAM epimerase
essential
no
synonyms
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      

categories

  • [category|SW 2|Metabolism] → [category|SW 2.6|Additional metabolic pathways] → [category|SW 2.6.6|Miscellaneous metabolic pathways] → [category|SW 2.6.6.1|Biosynthesis of antibacterial compounds]
  • [category|SW 3|Information processing] → [category|SW 3.3|Protein synthesis, modification and degradation] → [category|SW 3.3.4|Protein modification] → [category|SW 3.3.4.8|Protein modification/ other]
  • [category|SW 3|Information processing] → [category|SW 3.4|Regulation of gene expression] → [category|SW 3.4.2|Transcription factors and their control] → [category|SW 3.4.2.2|Control of two-component response regulators] → [category|SW 3.4.2.2.3|Control of response regulators/ other]
  • [category|SW 4|Lifestyles] → [category|SW 4.3|Coping with stress] → [category|SW 4.3.15|Biosynthesis of antibacterial compounds]

    • Gene

    Coordinates
    4,126,481 4,127,440

    The protein

    Catalyzed reaction/ biological activity

  • epimerization of Val-36 and Ile-44 of [protein|D66B9BFF79ADD8B0F9BFA3892FCF4597264CE9EE|YydF] to the D-form [pubmed|28644475]

    • Protein family

  • radical SAM enzymes [pubmed|28644475]

    • [SW|Cofactors]

  • two Fe-S clusters [pubmed|28644475]
  • SAM [pubmed|28644475]

    • Expression and Regulation

    Operons

    genes
    [gene|D66B9BFF79ADD8B0F9BFA3892FCF4597264CE9EE|yydF]-[gene|25FC87037222084ABE318813959101016FEB49DF|yydG]-[gene|E280A5994F4D9D93DA4B698E79C86360DBEE5396|yydH]-[gene|1BF1A48CF645249CA9ECBB19C04B059B11D821EF|yydI]-[gene|A4213DE6C9BE29405B0A4C0A969A78EA4C5EB71F|yydJ]
    description
    [Pubmed|17921301]

    sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|17921301], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

    • regulatory mechanism

  • [protein|E5110D9C36E8C55AFD1419987B14A53232165F20|AbrB]: repression, [Pubmed|17921301], in [regulon|E5110D9C36E8C55AFD1419987B14A53232165F20|AbrB regulon]
  • [protein|1508770D5BCA5739D13E3ABD11CC5C103C07FF25|Rok]: repression, [Pubmed|15743949], in [regulon|1508770D5BCA5739D13E3ABD11CC5C103C07FF25|Rok regulon]

    • regulation

  • activated after transition to stationary phase([protein|E5110D9C36E8C55AFD1419987B14A53232165F20|AbrB]) [Pubmed|17921301]
    • view in new tab

    Biological materials

    Mutant

  • MGNA-B810 (yydG::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1809 NBRP B. subtilis, Japan]
  • BKE40170 ([gene|25FC87037222084ABE318813959101016FEB49DF|yydG]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE40170 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGAAATATCCCCCAACAA, downstream forward: _UP4_TATCCTTATATGGAAAAATA
  • BKK40170 ([gene|25FC87037222084ABE318813959101016FEB49DF|yydG]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK40170 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGAAATATCCCCCAACAA, downstream forward: _UP4_TATCCTTATATGGAAAAATA

    • References

    Reviews

  • 23106164

    • Original publications

  • 17921301,12850135,17921301,21815947,23199363,28644475