ydaG

168

putative pyridoxamine 5'-phosphate oxidase , general stress protein, required for protection against paraquat stress

locus: BSU_04220

Molecular weight: 15.00 kDa

pI: 5.195

Protein length: 140 aa

Gene length: 423 bp

function: survival of stress conditions

product: putative pyridoxamine 5'-phosphate oxidase

essential: no

synonyms: ydaG, yzzA

List of homologs in different organisms, belongs to COG3871 (Galperin et al., 2021)

Gene

Coordinates: 473,803  474,225

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The protein

Structure

• [PDB|3DB0] (from Listeria innocua, 43% identity)
• [AF|P80238]

Expression and Regulation

Operons

• genes: [gene|BFDAB855DC76A78C100DC5E5FB81F73069F5F93F|ydaF]-[gene|29342783A375260C5DAE920FBF6EC6EFD2D54DDE|ydaG]

  description: [Pubmed|22383849]

• genes: [gene|29342783A375260C5DAE920FBF6EC6EFD2D54DDE|ydaG]

  description: [Pubmed|10220166]

  regulation

  • induced under stress conditions ([protein|search|SigB]) [Pubmed|10220166]

  sigma factors

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

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

  description: [Pubmed|10220166]

  regulation

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

  expression

  • expression is increased upon depletion of depletion of tRNA maturation factors [gene|57A79AAF00243B5E058FA901D43AA7B55CA33F63|rnpB] or [gene|C40C5D35ED53D343C8200248FCCB010BAB388054|rnz] [pubmed|36840557]

  sigma factors

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

Biological materials

Mutant

• MGNA-C102 (ydaG::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/2100 NBRP B. subtilis, Japan]
• BKE04220 ([gene|29342783A375260C5DAE920FBF6EC6EFD2D54DDE|ydaG]::erm  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE04220 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATCTCGAATCACTCCTTTT,  downstream forward: _UP4_TAAAAAATTTGTGTTTTCAG
• BKK04220 ([gene|29342783A375260C5DAE920FBF6EC6EFD2D54DDE|ydaG]::kan  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK04220 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATCTCGAATCACTCCTTTT,  downstream forward: _UP4_TAAAAAATTTGTGTTTTCAG

References

• 10220166,22582280,15805528,23033921