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ykuR
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ykuR

N-acetyl-diaminopimelate deacetylase
locus
BSU_14190
pI
5.10
mw
41.40 kDa
protein length
374 aa Sequence Blast
gene length
1125 bp Sequence Blast
function
biosynthesis of lysine and peptidoglycan
product
N-acetyl-diaminopimelate deacetylase
essential
yes
ec
3.5.1.47
synonyms
dapL
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 2.3|Amino acid/ nitrogen metabolism] → [category|SW 2.3.1|Biosynthesis/ acquisition of amino acids] → [category|SW 2.3.1.6|Biosynthesis/ acquisition of lysine/ threonine]
  • [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]
  • [category|SW 6|Groups of genes] → [category|SW 6.1|Essential genes]

    • Gene

    Coordinates
    1,489,753 → 1,490,877

    Phenotypes of a mutant

  • essential [Pubmed|24261876,12682299]
  • depletion of DapI results in swelling and rounding up of cells prior to lysis [Pubmed|24261876]

    • The protein

    Catalyzed reaction/ biological activity

  • N-acetyl-LL-2,6-diaminopimelate + H2O -→ acetate + LL-2,6-diaminopimelate [Pubmed|24261876]

    • Protein family

  • [SW|peptidase M20A family] (according to UniProt)

    • Paralogous protein(s)

  • [protein|0DE66A10D9475DC57A140561E8532D3EC038FD6F|SndA], [protein|C99AA3FDBB561BCED60915078DC746690C071753|SndB], [protein|D1A8D231369F0BF48639B61094B3222EC4605B79|SndC]

    • Structure

  • [PDB|1YSJ] ([protein|C99AA3FDBB561BCED60915078DC746690C071753|SndB], 36% identity)

    • [SW|Localization]

  • forms uniformly distributed foci in the cytoplasm [Pubmed|24261876]

    • Expression and Regulation

    Operons

    genes
    [gene|716FE06124544C05CC34BA2E643B4DBD27F04998|ykuQ]-[gene|D6F1906CE8386F78F451D6B794F74DE4AD25AC9C|ykuR]-[gene|3E7E0342AA86AFCC95F5CD5BEA5B10166DCE2721|ykuS]
    description
    [Pubmed|22383849]
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    Biological materials

    Mutant

  • MGNA-B341 (ykuR::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1340 NBRP B. subtilis, Japan]

    • References

  • 24261876