ydaD

168

general stress protein, similar to alcohol dehydrogenase

locus: BSU_04190

Molecular weight: 30.93 kDa

pI: 4.78

Protein length: 286 aa

Gene length: 861 bp

function: unknown

product: unknown

essential: no

synonyms: ydaD

List of homologs in different organisms, belongs to COG1028 (Galperin et al., 2021)

Gene

Coordinates: 471,709  472,569

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The protein

Protein family

• [wiki|Short-chain dehydrogenases/reductases (SDR) family] (according to UniProt)

Structure

• [PDB|3I30] (from ''Bacillus Anthracis'', 61% identity)
• [AF|P80873]

Paralogous protein(s)

• [protein|EAEEA4DD9641919830A81185333A2610B964D37C|yhdF], [protein|20A7DBA142F3BF8DCAD9732BD908CE8CC79AA993|bacC]
• [protein|439B468A13137000FB42E9389391CB4986FFED84|fabG], (31.1%)
• [protein|4DEFC2998464BF8327578C36A13A10DD277F991E|ykvO], (37.5%),
• [protein|6047F2493FCE3D2A9BDB1AD88E5926ECEED81036|yhxC], (63,5%)
• [protein|739B228743BC1FE9E6888E999BC0E4F615E36F9E|yhxD], (48,8%)
• [protein|B6FF689E65906186F3576B378650D713DB84EDDA|ycdF], (69%)
• [protein|CA4597C6253CCF7D7954686A30AF041808BDF8E5|gdh], (35,8%)
• [protein|D9D1FCBFC62F93CAA34DF61A784406F4E9EE6768|yjdA], (33,3%)
• [protein|FBBDE1E058223D5E8CEB07CAA50940A329C809E4|kduD], (36.7%)
• [protein|20A7DBA142F3BF8DCAD9732BD908CE8CC79AA993|bacC] (34.3%), [protein|439B468A13137000FB42E9389391CB4986FFED84|fabG] (31.1%), [protein|FBBDE1E058223D5E8CEB07CAA50940A329C809E4|kduD] (36.7%), [protein|EAEEA4DD9641919830A81185333A2610B964D37C|yhdF]

Expression and Regulation

Operons

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

  description: [Pubmed|22383849]

  regulation

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

  sigma factors

  • [protein|580011DE5DC40EC9E7E0512791D328FAA010DCB8|sigB]: sigma factor, [pubmed|15805528,10220166], 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-C086 (ydaD::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/2084 NBRP B. subtilis, Japan]
• BKE04190 ([gene|3161519994609DA9360ED6E073E4A4C8C6210EFB|ydaD]::erm  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE04190 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATGATGATTCTCCTCCTTT,  downstream forward: _UP4_ACGACATAAGAGGGAGTGAG
• BKK04190 ([gene|3161519994609DA9360ED6E073E4A4C8C6210EFB|ydaD]::kan  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK04190 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATGATGATTCTCCTCCTTT,  downstream forward: _UP4_ACGACATAAGAGGGAGTGAG

References

• 10220166,15805528,23033921