cydA

cytochrome bd ubiquinol oxidase (subunit I), high affinity terminal oxidase

locus: BSU_38760

pI: 8.94

mw: 52.13 kDa

protein length: 468 aa

gene length: 1407 bp

function: respiration

product: cytochrome bd ubiquinol oxidase (subunit I), high affinity terminal oxidase

essential: no

synonyms: yxkK

Genomic Context

categories

• [category|SW 2|Metabolism] → [category|SW 2.1|Electron transport and ATP synthesis] → [category|SW 2.1.2|Respiration] → [category|SW 2.1.2.1|Terminal oxidases]
• [category|SW 6|Groups of genes] → [category|SW 6.2|Membrane proteins]

Gene

Coordinates: 3,977,791 → 3,979,197

The protein

Catalyzed reaction/ biological activity

• 2 ubiquinol + n H⁺ + O₂ --> 2 ubiquinone + n H⁺ + 2 H₂O (according to UniProt)

Protein family

• cytochrome ubiquinol oxidase subunit 1 family (with [protein|EB8AF295A11F28BDFAE39038FA89890824FC7791|YthA], according to UniProt)

Paralogous protein(s)

• [protein|EB8AF295A11F28BDFAE39038FA89890824FC7791|YthA]

[SW|Cofactors]

• heme b, heme d (according to UniProt)

Structure

• [PDB|5DOQ] (from Geobacillus thermodenitrificans, 30% identity) [pubmed|27126043]

[SW|Localization]

• cell membrane (according to Swiss-Prot)

Expression and Regulation

Operons

• genes: [gene|C0459C0D45E31561D281E016D86CD80DCAF13357|cydA]-[gene|E66EAB3C172ED8D1D26C675A7338B8153FB66987|cydB]-[gene|A65576E0261F1950A0DAD72B2432D97AB3EB2AA5|cydC]-[gene|244BF9E397FDB0691FFAA8C9D419B0AE417CACE1|cydD]
  description: [Pubmed|16207915]

  sigma factors

  • [protein|CFF318EE6CACDEE763FBF96A2ABB46E944679AAA|SigF]: sigma factor, [PubMed|16497325], in [regulon|CFF318EE6CACDEE763FBF96A2ABB46E944679AAA|SigF regulon]

  regulatory mechanism

  • [protein|E39AFEB7B7F28969A35C4B51CC6E7819F71C79D9|CcpA]: repression, in [regulon|E39AFEB7B7F28969A35C4B51CC6E7819F71C79D9|CcpA regulon]
  • [protein|B5EF521437323EF43F08E5EFDB5C798616CA499A|Rex]: repression, [Pubmed|15231791], in [regulon|B5EF521437323EF43F08E5EFDB5C798616CA499A|Rex regulon]
  • [protein|1E829D639BADDC6BDC9B5FB4C97A632A53FDDB24|ResD]: activation, [Pubmed|17322317], in [regulon|1E829D639BADDC6BDC9B5FB4C97A632A53FDDB24|ResD regulon]

  regulation

  • expressed under anaerobic conditions ([protein|search|ResD]) [Pubmed|17322317]

Biological materials

Mutant

• MGNA-B745 (cydA::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1744 NBRP B. subtilis, Japan]
• BKE38760 (Δ[gene|C0459C0D45E31561D281E016D86CD80DCAF13357|cydA]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE38760 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGCTTTCTCCTCCATTTC, downstream forward: _UP4_GATCCATTTAGTCAGGAGGT
• BKK38760 (Δ[gene|C0459C0D45E31561D281E016D86CD80DCAF13357|cydA]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK38760 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGCTTTCTCCTCCATTTC, downstream forward: _UP4_GATCCATTTAGTCAGGAGGT

References

• 16207915,17322317,17015645,15231791,9852001,10551842,15231791,17322317,27126043