SubtiBank SubtiBank
ddl
The papers of the month are back! Check them out! Link here

ddl

D-alanine-D-alanine ligase
locus
BSU04560
pI
4.58
mw
38.97 kDa
protein length
354 aa Sequence Blast
gene length
1062 bp Sequence Blast
function
peptidoglycan precursor biosynthesis
product
D-alanine-D-alanine ligase
essential
yes
ec
6.3.2.4
synonyms
ddlA

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]
  • [category|SW 4|Lifestyles] → [category|SW 4.3|Coping with stress] → [category|SW 4.3.2|Cell envelope stress proteins (controlled by SigM, V, W, X, Y)]
  • [category|SW 6|Groups of genes] → [category|SW 6.1|Essential genes]
  • Gene

    Coordinates
    508,248 → 509,312

    Phenotypes of a mutant

  • essential [Pubmed|12682299]
  • The protein

    Catalyzed reaction/ biological activity

  • ATP + 2 D-alanine = ADP + phosphate + D-alanyl-D-alanine (according to Swiss-Prot)
  • Protein family

  • ATP-grasp domain (according to Swiss-Prot)
  • Structure

  • [PDB|2YZG] (from ''Thermus thermophilus hb8 mutant'', 40% identity, 53% similarity)
  • [SW|Localization]

  • cytoplasm (according to Swiss-Prot)
  • Expression and Regulation

    Operons

    genes
    [gene|A47DBF8546E0F726A0FE58C21D3F28150290DF7F|ddl]-[gene|EC9F1D4F1863E53A818A51B0E16B201A251F077E|murF]
    description
    [Pubmed|22383849]

    sigma factors

  • [protein|081DF3EE9FA56209D648C7677188C61CE3AA8E41|SigM]: sigma factor, [Pubmed|18179421], in [regulon|081DF3EE9FA56209D648C7677188C61CE3AA8E41|SigM regulon]
  • [protein|D04629D798E458AD538809BB2B150B7FA81D2C7E|SigV]: sigma factor, in [regulon|D04629D798E458AD538809BB2B150B7FA81D2C7E|SigV regulon]
  • regulation

  • expression is reduced in a [protein|D04629D798E458AD538809BB2B150B7FA81D2C7E|SigV] mutant [Pubmed|21926231]
  • the leader mRNA is processed upstream of [gene|A47DBF8546E0F726A0FE58C21D3F28150290DF7F|ddl] by [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y], this requires the [protein|EE52DFA35B935E551871D079A9BE877DB2001A3B|YmcA]-[protein|6C9A092F38739A3759793EF8B496569CD02C2E3F|YlbF]-[protein|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|YaaT] complex [Pubmed|29794222]
  • view in new tab

    Biological materials

    Mutant

  • MGNA-C104 (ddlA::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/2102 NBRP B. subtilis, Japan]
  • References

  • 18179421,29794222