ykfC

D-glutamyl-L-amino acid peptidase

locus: BSU_12990

pI: 6.35

mw: 32.91 kDa

protein length: 296 aa

gene length: 891 bp

function: cell wall metabolism

product: D-glutamyl-L-amino acid peptidase

essential: no

synonyms

Genomic Context

categories

• [category|SW 1|Cellular processes] → [category|SW 1.1|Cell envelope and cell division] → [category|SW 1.1.5|Cell wall/ other]

Gene

Coordinates: 1,367,941 → 1,368,831

The protein

Catalyzed reaction/ biological activity

• cleaves L-Ala-γ-D-Glu dipeptides from cell wall peptides [Pubmed|20944232]
• The enzyme releases L-Ala-gamma-D-Glu dipeptides from cell wall peptides via cleavage of an L-Ala-gamma-D-Glu-|-L-Lys bond (according to UniProt)

Protein family

• [SW|Peptidase C40 family] (according to UniProt)

Structure

• [PDB|3H41] (from B. cereus, 39% identity) [pubmed|20944232]

Expression and Regulation

Operons

• genes: [gene|9E922F0006DF9E84A8D5B51E9FC35B669872FF90|dppA]-[gene|062AE5FB4C778178A7F6833CB8BD9D631E461E89|dppB]-[gene|EDF8D2C49FA5552B24135E12524F9035E1E01473|dppC]-[gene|7FA72D949B930A3C7FF0391CC6CCC58EEFCA839A|dppD]-[gene|853C570CFB9382449A20BE77B44B4FE44972AA59|dppE]-[gene|C4F85F85F0C99A59145961E34B19D3AD03D2BC22|ykfA]-[gene|77EFC47449D8CC17651ED61C41AC605FCEF01270|ykfB]-[gene|D40ECAE51D9E4791C6FAAA25E2E0D0591D9FAA55|ykfC]-[gene|BB94F5388A0D1FF025E5A88A7E10AE7E4C489E5F|ykfD]
  description: [pubmed|22383849]

  regulatory mechanism

  • [protein|90ACE0DECA58D3C1A55E135120F7A0C1C920571C|CodY]: repression, [Pubmed|12618455], in [regulon|90ACE0DECA58D3C1A55E135120F7A0C1C920571C|CodY regulon]

Biological materials

Mutant

• MGNA-A742 (ykfC::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/742 NBRP B. subtilis, Japan]
• BKE12990 (Δ[gene|D40ECAE51D9E4791C6FAAA25E2E0D0591D9FAA55|ykfC]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE12990 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACTGCTGATATGACAGTGT, downstream forward: _UP4_TTTTCAGAATAAGGAGGGAG
• BKK12990 (Δ[gene|D40ECAE51D9E4791C6FAAA25E2E0D0591D9FAA55|ykfC]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK12990 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACTGCTGATATGACAGTGT, downstream forward: _UP4_TTTTCAGAATAAGGAGGGAG

References

• 12618455,20944232