ydaE [2019-06-21 09:37:36]

lyxose isomerase, general stress protein, survival of ethanol stress and low temperatures

locus: BSU04200

pI: 4.88

mw: 19.11 kDa

protein length: 167 aa

gene length: 504 bp

function: survival of ethanol stress and low temperatures

product: lyxose isomerase

essential: no

synonyms

Genomic Context

categories

• [category|SW 2|Metabolism] → [category|SW 2.2|Carbon metabolism] → [category|SW 2.2.2|Utilization of specific carbon sources] → [category|SW 2.2.2.28|Utilization of other pentoses and hexoses]
• [category|SW 4|Lifestyles] → [category|SW 4.3|Coping with stress] → [category|SW 4.3.1|General stress proteins (controlled by SigB)]

Gene

Coordinates: 472,585 → 473,088

The protein

Catalyzed reaction/ biological activity

• D-lyxose = D-xylulose (according to Swiss-Prot)

Protein family

• D-lyxose ketol-isomerase family (according to Swiss-Prot)

Structure

• [PDB|2Y0O] [Pubmed|21520290]

Expression and Regulation

Operons

• genes: [gene|3161519994609DA9360ED6E073E4A4C8C6210EFB|ydaD]-[gene|DDE975DA2E13759B0DB8B6D219760C2E2C6032FB|ydaE]
  description: [Pubmed|22383849]

  sigma factors

  • [protein|580011DE5DC40EC9E7E0512791D328FAA010DCB8|SigB]: sigma factor, [pubmed|15805528,10220166], in [regulon|580011DE5DC40EC9E7E0512791D328FAA010DCB8|SigB regulon]

  regulation

  • induced by stress ([protein|580011DE5DC40EC9E7E0512791D328FAA010DCB8|SigB]) [Pubmed|15805528]

• genes: [gene|3161519994609DA9360ED6E073E4A4C8C6210EFB|ydaD]-[gene|DDE975DA2E13759B0DB8B6D219760C2E2C6032FB|ydaE]-[gene|BFDAB855DC76A78C100DC5E5FB81F73069F5F93F|ydaF]-[gene|29342783A375260C5DAE920FBF6EC6EFD2D54DDE|ydaG]
  description: [Pubmed|10220166]

  sigma factors

  • [protein|580011DE5DC40EC9E7E0512791D328FAA010DCB8|SigB]: sigma factor, [Pubmed|15805528,10220166], in [regulon|580011DE5DC40EC9E7E0512791D328FAA010DCB8|SigB regulon]

  regulation

  • induced by stress ([protein|search|SigB]) [Pubmed|15805528]

Biological materials

Mutant

• MGNA-C087 (ydaE::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/2085 NBRP B. subtilis, Japan]
• BKE04200 (Δ[gene|DDE975DA2E13759B0DB8B6D219760C2E2C6032FB|ydaE]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE04200 BGSC], [Pubmed|28189581], upstream reverse: _UP1_GATGCCCATATGTCTCACTC, downstream forward: _UP4_TAAGGATGGGCTTAACAGCC
• BKK04200 (Δ[gene|DDE975DA2E13759B0DB8B6D219760C2E2C6032FB|ydaE]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK04200 BGSC], [Pubmed|28189581], upstream reverse: _UP1_GATGCCCATATGTCTCACTC, downstream forward: _UP4_TAAGGATGGGCTTAACAGCC

References

• 10220166,15805528,23033921,21520290