SubtiBank SubtiBank
ylmD
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ylmD

peptidoglycan-editing factor, prevents incorporation of glycine or L-serine into the PG sacculi
locus
BSU_15370
pI
6.18
mw
30.79 kDa
protein length
278 aa Sequence Blast
gene length
837 bp Sequence Blast
function
quality control to maintain composition and integrity of peptidoglycan
product
peptidoglycan-editing factor
essential
no
synonyms
pgeF
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      

categories

  • [category|SW 1|Cellular processes] → [category|SW 1.1|Cell envelope and cell division] → [category|SW 1.1.1|Cell wall synthesis] → [category|SW 1.1.1.1|Biosynthesis of peptidoglycan]
  • [category|SW 2|Metabolism] → [category|SW 2.6|Additional metabolic pathways] → [category|SW 2.6.1|Biosynthesis of cell wall components] → [category|SW 2.6.1.1|Biosynthesis of peptidoglycan]

    • Gene

    Coordinates
    1,609,327 → 1,610,163

    Phenotypes of a mutant

  • sensitive to ß-lactam antibiotics [pubmed|28612943]

    • The protein

    Protein family

  • multicopper oxidase YfiH/RL5 family (single member, according to UniProt)

    • Structure

  • [PDB|1T8H] (from Geobacillus stearothermophilus, 52% identity)

    • Expression and Regulation

    Operons

    genes
    [gene|ECCE99438DBFC52DA7236CB4F6486DD004CADF73|ylmD]-[gene|31789A170CB624BF8210C915F40007F802F5C81B|ylmE]-[gene|DB09F1C36257F511A84A083967A25A9D46744D14|sepF]-[gene|2B2D285D5A8F160808A21DCF07BDB924365970C5|ylmG]-[gene|BD5ACF930DD63E258D71569326752C9A1D7B9324|ylmH]
    description
    [Pubmed|16420366]

    regulatory mechanism

  • [protein|2C54FE2ADC82FF414D732018C90649D477A925AD|Spo0A]: repression, [Pubmed|14651647], in [regulon|2C54FE2ADC82FF414D732018C90649D477A925AD|Spo0A regulon]

    • regulation

  • repressed under conditions that trigger sporulation ([SW|Spo0A]) [Pubmed|14651647]
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    Biological materials

    Mutant

  • MGNA-B125 (ylmD::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1124 NBRP B. subtilis, Japan]
  • BKE15370 (Δ[gene|ECCE99438DBFC52DA7236CB4F6486DD004CADF73|ylmD]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE15370 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGATGATCCAACCTTTCG, downstream forward: _UP4_GGAATGAAGGAGGCATAAAA
  • BKK15370 (Δ[gene|ECCE99438DBFC52DA7236CB4F6486DD004CADF73|ylmD]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK15370 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGATGATCCAACCTTTCG, downstream forward: _UP4_GGAATGAAGGAGGCATAAAA

    • References

  • 14651647,16420366,28612943