yncD

spore coat alanine racemase

locus: BSU_17640

pI: 9.59

mw: 43.49 kDa

protein length: 394 aa

gene length: 1182 bp

function: protection of the spore

product: spore coat alanine racemase

essential: no

ec: 5.1.1.1

synonyms: alrB

Genomic Context

categories

• [category|SW 4|Lifestyles] → [category|SW 4.2|Sporulation] → [category|SW 4.2.1|Sporulation proteins] → [category|SW 4.2.1.1|Spore coat proteins] → [category|SW 4.2.1.1.2|Class II]
• [category|SW 6|Groups of genes] → [category|SW 6.6|Poorly characterized/ putative enzymes]

Gene

Coordinates: 1,897,941 → 1,899,125

The protein

Catalyzed reaction/ biological activity

• L-alanine --> D-alanine (according to UniProt)

Protein family

• alanine racemase family (with [protein|CB0B6C69CB5CFF6FE30C3F95991F309C8DE1E344|Alr], according to UniProt)

Paralogous protein(s)

• [protein|CB0B6C69CB5CFF6FE30C3F95991F309C8DE1E344|Alr]

[SW|Cofactors]

• PLP (according to UniProt)

Structure

• [PDB|5IRP] (from Bacillus subtilis 100% identity)
• [PDB|6Q70] (crystallized with HEPES) [Pubmed|30977502]
• [PDB|6Q71] (crystallized with Bis-Tris Propane) [Pubmed|30977502]
• [PDB|6Q72] [Pubmed|30977502]

[SW|Localization]

• outer spore coat, localization depends on [protein|825AD8D4315A85CD384F9AF6AD894E38E57C88F7|CotE] [Pubmed|22171814]

Expression and Regulation

Operons

• genes: [gene|E267F2B6448E380B354AE091734E4AC4DB5825EF|yncD]
  description: [Pubmed|22383849]

  sigma factors

  • [protein|3CB24D493B3282278B7DC61CE3C793DFA815F9E2|SigE]: sigma factor, [Pubmed|15699190,14523133], in [regulon|3CB24D493B3282278B7DC61CE3C793DFA815F9E2|SigE regulon]

  regulation

  • expressed during sporulation in the mother cell ([protein|3CB24D493B3282278B7DC61CE3C793DFA815F9E2|SigE]) [Pubmed|15699190,14523133]

Biological materials

Mutant

• MGNA-B099 (yncD::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1098 NBRP B. subtilis, Japan]
• BKE17640 (Δ[gene|E267F2B6448E380B354AE091734E4AC4DB5825EF|yncD]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE17640 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATCAACGCTTCCTTCCTTC, downstream forward: _UP4_TAGAACATCTTAAAATGCTG
• BKK17640 (Δ[gene|E267F2B6448E380B354AE091734E4AC4DB5825EF|yncD]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK17640 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATCAACGCTTCCTTCCTTC, downstream forward: _UP4_TAGAACATCTTAAAATGCTG

References

Reviews

• 23202530

Original publications

• 18399999,15699190,14523133,22171814,30977502