yerD

general stress protein, similar to glutamate synthase (ferredoxin), required for protection against paraquat stress

locus: BSU_06590

pI: 7.35

mw: 58.58 kDa

protein length: 525 aa

gene length: 1578 bp

function: protection against paraquat stress

product: unknown

essential: no

synonyms

Genomic Context

categories

• [category|SW 4|Lifestyles] → [category|SW 4.3|Coping with stress] → [category|SW 4.3.1|General stress proteins (controlled by SigB)]
• [category|SW 4|Lifestyles] → [category|SW 4.3|Coping with stress] → [category|SW 4.3.8|Resistance against oxidative and electrophile stress]
• [category|SW 6|Groups of genes] → [category|SW 6.2|Membrane proteins]
• [category|SW 6|Groups of genes] → [category|SW 6.6|Poorly characterized/ putative enzymes]

Gene

Coordinates: 716,780 → 718,357

The protein

Protein family

• glutamate synthase family (with [protein|44DF1B7E476AD58B3CCC39300FFE0132D0D32AD0|GltA] and [protein|AA07CC52B2DD48ACC9D3375E9D531CB1ACBE485A|GltB], according to UniProt)

Paralogous protein(s)

• [protein|44DF1B7E476AD58B3CCC39300FFE0132D0D32AD0|GltA]

[SW|Cofactors]

• FMN or FAD [Pubmed|21635694]

Structure

• [PDB|1EA0] (from Azospirillum brasilense, corresponds to aa 184 ... 495, 30% identity)

[SW|Localization]

• cell membrane (according to UniProt)

Expression and Regulation

Operons

• genes: [gene|D1AF9DA2594D2E2A94DC207A870C8495954A7A17|yerD]
  description: [Pubmed|22383849]

  sigma factors

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

  regulation

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

Biological materials

Mutant

• MGNA-A925 (yerD::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/925 NBRP B. subtilis, Japan]
• GP1184 (tet) available in [SW|Jörg Stülke]'s lab
• BKE06590 (Δ[gene|D1AF9DA2594D2E2A94DC207A870C8495954A7A17|yerD]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE06590 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATCTCTCAGCCTCCCTTTT, downstream forward: _UP4_TAAAGAAACCGCCCTTGCCA
• BKK06590 (Δ[gene|D1AF9DA2594D2E2A94DC207A870C8495954A7A17|yerD]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK06590 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATCTCTCAGCCTCCCTTTT, downstream forward: _UP4_TAAAGAAACCGCCCTTGCCA

Expression vectors

• pBP32 (expression vector for ''E. coli'' BL21; N-terminal Strep-tag-YerD fusion protein, based on [SW|pGP172]), available in [SW|Fabian Commichau]'s lab

FLAG-tag construct

• GP1187 (spc, based on [SW|pGP1331]), available in [SW|Jörg Stülke]'s lab

labs

• [SW|Fabian Commichau], Göttingen, Germany [http://www.uni-goettingen.de/de/413008.html homepage]

References

• 15805528,22383849,23033921,22582280