ycnK

copper-responsive transcription repressor of the [gene|98D807FBB847BF731B5C236557C8F70347279CE0|ycnK]-[gene|D0F553E661A35C69380ACB01D9A96FC6C5088470|ycnJ]-[gene|1B7F59F954A1F20F75F5D4953F84CE58171741DE|ycnI] operon, [SW|DeoR family]

locus: BSU_03960

pI: 7.37

mw: 21.29 kDa

protein length: 190 aa

gene length: 573 bp

function: regulation of copper uptake

product: transcription repressor, [SW|DeoR family]

essential: no

synonyms

Genomic Context

categories

• [category|SW 1|Cellular processes] → [category|SW 1.3|Homeostasis] → [category|SW 1.3.2|Trace metal homeostasis (Cu, Zn, Ni, Mn, Mo)] → [category|SW 1.3.2.1|Copper]
• [category|SW 3|Information processing] → [category|SW 3.4|Regulation of gene expression] → [category|SW 3.4.2|Transcription factors and their control] → [category|SW 3.4.2.5|Transcription factors/ other]

Gene

Coordinates: 448,461 449,033

Phenotypes of a mutant

• elevated expression of ''[gene|D0F553E661A35C69380ACB01D9A96FC6C5088470|ycnJ]'' under conditions of copper excess [Pubmed|19168619]

The protein

Catalyzed reaction/ biological activity

• repression of ''[gene|98D807FBB847BF731B5C236557C8F70347279CE0|ycnK]-[gene|D0F553E661A35C69380ACB01D9A96FC6C5088470|ycnJ]-[gene|1B7F59F954A1F20F75F5D4953F84CE58171741DE|ycnI]'' expression in the presence of excess copper [Pubmed|22904286,19168619]

Protein family

• DeoR family of transcription factors

[SW|Domains]

• [SW|HTH deoR-type domain] (aa 3-58) (according to UniProt)

[SW|Cofactors]

• copper acts as corepressor [Pubmed|19168619]

Expression and Regulation

Operons

• genes: [gene|98D807FBB847BF731B5C236557C8F70347279CE0|ycnK]-[gene|D0F553E661A35C69380ACB01D9A96FC6C5088470|ycnJ]-[gene|1B7F59F954A1F20F75F5D4953F84CE58171741DE|ycnI]
  description: [Pubmed|22904286,22383849]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|22904286], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

  regulatory mechanism

  • [protein|98D807FBB847BF731B5C236557C8F70347279CE0|YcnK]: repression, [Pubmed|22904286,19168619], in [regulon|98D807FBB847BF731B5C236557C8F70347279CE0|YcnK regulon]
  • [protein|E5110D9C36E8C55AFD1419987B14A53232165F20|AbrB]: repression, [Pubmed|15101989], in [regulon|E5110D9C36E8C55AFD1419987B14A53232165F20|AbrB regulon]

  regulation

  • induced by copper limitation ([protein|search|YcnK]) [Pubmed|22904286,19168619]

Biological materials

Mutant

• MGNA-C017 (ycnK::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/2015 NBRP B. subtilis, Japan]
• BKE03960 ([gene|98D807FBB847BF731B5C236557C8F70347279CE0|ycnK]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE03960 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATTCATACACCCTCTTCAT, downstream forward: _UP4_TAACACAACACATACAGCGG
• BKK03960 ([gene|98D807FBB847BF731B5C236557C8F70347279CE0|ycnK]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK03960 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATTCATACACCCTCTTCAT, downstream forward: _UP4_TAACACAACACATACAGCGG

labs

• [SW|Mohamed Marahiel], Marburg University, Germany [http://www.uni-marburg.de/fb15/fachgebiete/bio/marahiel?language_sync=1 homepage]

References

Reviews

• 22918892,25209494

Original publications

• 19168619,22904286,22383849,15101989