Save the date! 20th International Conference on Bacilli and Gram-Positive Bacteria. Washington, D.C. July 23-26, 2019.

bkdR

transcriptional activator of the [gene|1CFF7202AC6078B6BAD1253F77FD4FE227C046DB|ptb]-[gene|A52E50104B18D0A8518218C52D9CC36FDDB29AAF|bcd]-[gene|8E08A0333E4EC89003DA3C1DD8DCD39CDDC8624C|buk]-[gene|1FD06CB6E81C920EFC656DBE2A13D68B1AA68872|lpdV]-[gene|9F298088C0A9EB7FE140C935AFC9243C6D4DE8AE|bkdAA]-[gene|A024921961A786294199EA12E04456C890ED8D8C|bkdAB]-[gene|262C9FD20C7A70B6F1FEB57735FA800F38EAB25A|bkdB] operon

locus: BSU_24100

pI: 6.24

mw: 77.75 kDa

protein length: 692 aa

gene length: 2079 bp

function: regulation of branched-chain amino acid utilization

product: transcriptional activator (for [protein|1118A21CC581B0470EC6E7C178F2523CDCA70F93|SigL]-dependent promoter)

essential: no

synonyms: yqiR

Genomic Context

categories

• [category|SW 2|Metabolism] → [category|SW 2.3|Amino acid/ nitrogen metabolism] → [category|SW 2.3.2|Utilization of amino acids] → [category|SW 2.3.2.9|Utilization of branched-chain amino acids]
• [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: 2,504,789 2,506,867

Phenotypes of a mutant

• cold-sensitive [pubmed|16585774]

The protein

Protein family

• [SW|Transcription factors activating transcription at SigL-dependent promoters]

[SW|Domains]

• two [SW|PAS domain]s (aa 115 ... 185, aa 234 ... 305) (according to UniProt)
• C-terminal domain for interaction with [protein|1118A21CC581B0470EC6E7C178F2523CDCA70F93|SigL] (aa 368 ... 598) (according to UniProt)

Structure

• [PDB|1OJL] (ZraR from Salmonella typhimurium, C-terminal interaction domain, corresponds to aa 368 ... 683 of BkdR, 41% identity) [pubmed|16005641]

Expression and Regulation

Operons

• genes: [gene|4CEBD81F485DD0B660E297FFC34A0F5270652184|bkdR]
  description: [Pubmed|12823818]

  regulatory mechanism

  • [protein|90ACE0DECA58D3C1A55E135120F7A0C1C920571C|CodY]: repression, [Pubmed|10094682], in [regulon|90ACE0DECA58D3C1A55E135120F7A0C1C920571C|CodY regulon]

  regulation

  • repressed during growth in the presence of branched chain amino acids ([protein|search|CodY]) [Pubmed|10094682]

Biological materials

Mutant

• MGNA-C375 (yqiR::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/2373 NBRP B. subtilis, Japan]
• 1A913 ( ''bkdR''::''kan''), [Pubmed|16585774], available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A913&Search=1A913 BGSC] and in [SW|Jörg Stülke]'s lab
• BKE24100 ([gene|4CEBD81F485DD0B660E297FFC34A0F5270652184|bkdR]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE24100 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATCCCGATACCCCTTTGTA, downstream forward: _UP4_TAATTTGCAGAATAAACGCA
• BKK24100 ([gene|4CEBD81F485DD0B660E297FFC34A0F5270652184|bkdR]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK24100 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATCCCGATACCCCTTTGTA, downstream forward: _UP4_TAATTTGCAGAATAAACGCA

References

• 16585774,10094682,23123912,12823818,21906631,16005641