yncD

168

spore coat alanine racemase

locus: BSU_17640

Molecular weight: 43.49 kDa

pI: 9.59

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: yncD, alrB

List of homologs in different organisms, belongs to COG0787 (Galperin et al., 2021)

Gene

Coordinates: 1,897,941 → 1,899,125

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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)

[wiki|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]
• [AF|P94494]

Paralogous protein(s)

• [protein|CB0B6C69CB5CFF6FE30C3F95991F309C8DE1E344|alr]

[wiki|Localization]

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

Expression and Regulation

Operons

• genes: [gene|E267F2B6448E380B354AE091734E4AC4DB5825EF|yncD]

  description: [Pubmed|22383849]

  regulation

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

  sigma factors

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

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://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://bgsc.org/getdetail.php?bgscid=BKK17640 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATCAACGCTTCCTTCCTTC,  downstream forward: _UP4_TAGAACATCTTAAAATGCTG

References

Reviews

• 23202530,35638784

Original Publications

• 18399999,15699190,14523133,22171814,30977502,33573199