rapD [2019-06-19 11:38:30]

response regulator aspartate phosphatase, controls [protein|search|ComA ]activity

locus: BSU36380

pI: 7.69

mw: 41.98 kDa

protein length: 354 aa

gene length: 1065 bp

function: control of [protein|7832489F11F606BCF637EC23BAAB41AD10237EBB|ComA]-dependent gene expression

product: response regulator aspartate phosphatase

essential: no

synonyms: ywpA

Genomic Context

categories

• [category|SW 3|Information processing] → [category|SW 3.1|Genetics] → [category|SW 3.1.7|Genetic competence]
• [category|SW 3|Information processing] → [category|SW 3.3|Protein synthesis, modification and degradation] → [category|SW 3.3.4|Protein modification] → [category|SW 3.3.4.4|Protein phosphatases]
• [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 3.4.2.2|Control of two-component response regulators] → [category|SW 3.4.2.2.2|Response regulator aspartate phosphatase]
• [category|SW 3|Information processing] → [category|SW 3.4|Regulation of gene expression] → [category|SW 3.4.8|Quorum sensing]
• [category|SW 4|Lifestyles] → [category|SW 4.1|Exponential and early post-exponential lifestyles] → [category|SW 4.1.3|Genetic competence]
• [category|SW 4|Lifestyles] → [category|SW 4.3|Coping with stress] → [category|SW 4.3.2|Cell envelope stress proteins (controlled by SigM, V, W, X, Y)]

Gene

Coordinates: 3,744,349 3,745,413

The protein

Catalyzed reaction/ biological activity

• control of [protein|7832489F11F606BCF637EC23BAAB41AD10237EBB|ComA]-dependent gene expression [Pubmed|17227471]

Protein family

• RAP family (according to Swiss-Prot)

[SW|Domains]

• six [SW|TPR repeat|tetratrichopeptide repeats] (according to UniProt)

Structure

• [PDB|4I9E] ([protein|1F860F4E66A3D503D5A97F17D4AB0504BEFE7F9D|RapF], 26% identity) [pubmed|23526880]

Expression and Regulation

Operons

• genes: [gene|4670F7C4CB9084A5BA478CAE238FA0F8C39F3A7E|rapD]
  description: [Pubmed|9636707]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|9636707], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]
  • [protein|081DF3EE9FA56209D648C7677188C61CE3AA8E41|SigM]: sigma factor, [Pubmed|18179421], in [regulon|081DF3EE9FA56209D648C7677188C61CE3AA8E41|SigM regulon]
  • [protein|E77364F274A520FCCA9F5C9504E317B047BA29E6|SigX]: sigma factor, [Pubmed|9636707], in [regulon|E77364F274A520FCCA9F5C9504E317B047BA29E6|SigX regulon]

  regulatory mechanism

  • [protein|972401B6AF56EC67FE6F1C3FEA9E2A9FC77C7672|RghR]: repression, [Pubmed|17227471], in [regulon|972401B6AF56EC67FE6F1C3FEA9E2A9FC77C7672|RghR regulon]

  regulation

  • repressed by [protein|search|RghR] [Pubmed|17227471]

Biological materials

Mutant

• MGNA-A079 (rapD::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/79 NBRP B. subtilis, Japan]
• BKE36380 ([gene|4670F7C4CB9084A5BA478CAE238FA0F8C39F3A7E|rapD]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE36380 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATTTTCCTACCTCTTTGCT, downstream forward: _UP4_TGATTGAAAAACGCCCATTT
• BKK36380 ([gene|4670F7C4CB9084A5BA478CAE238FA0F8C39F3A7E|rapD]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK36380 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATTTTCCTACCTCTTTGCT, downstream forward: _UP4_TGATTGAAAAACGCCCATTT

References

• 17227471,9636707,18179421,23526880