yhfR [2019-06-27 12:12:54]

phosphatase involved in isopentenol (isoprenoid) biosynthesis

locus: BSU10340

pI: 5.16

mw: 21.85 kDa

protein length: 193 aa

gene length: 582 bp

function: isoprenoid biosynthesis

product: unknown

essential: no

synonyms

Genomic Context

categories

• [category|SW 2|Metabolism] → [category|SW 2.4|Lipid metabolism] → [category|SW 2.4.2|Biosynthesis of lipids] → [category|SW 2.4.2.3|Biosynthesis of isoprenoids]

Gene

Coordinates: 1,108,736 1,109,317

Phenotypes of a mutant

• no detectable phenotype [Pubmed|10869096]

The protein

Catalyzed reaction/ biological activity

• phosphatase involved in isopentenol (isoprenoid) biosynthesis

Protein family

• GpmB subfamily (according to Swiss-Prot) similar to 2,3-diphosphoglycerate-dependent phosphoglycerate mutases [Pubmed|10869096]

Structure

• [PDB|1H2F] (enzyme of ''B. stearothermophilus'') [Pubmed|11827481]

Additional information

• The gene is annotated in KEGG as an ortholog of phosphoglycerate mutase (PGM) EC 5.4.2.1. In MetaCyc the protein is marked as similar to phosphoglycerate mutase. No EC annotation is available in Swiss-Prot. Pearson et al. ([Pubmed|10869096]) demonstrated that yhfR is non-essential for growth, sporulation, and spore germination. They also purified the gene, expressed it in ''B. subtilis'' but were not able to detect PGM activity in ''B. subtilis''. [Pubmed|19935659]

Expression and Regulation

Operons

• genes: [gene|73CB11C654E7A92D6F59B00E0710D3AA1FD2F099|yhfR]
  description: [Pubmed|22383849]

  regulatory mechanism

  • [protein|F761DBCE3429C99159F8F7CD8596FD9CF2D0589D|BirA]: repression, in [regulon|F761DBCE3429C99159F8F7CD8596FD9CF2D0589D|BirA regulon]

  additional information

  • weakly expressed [http://www.ncbi.nlm.nih.gov/sites/entrez/10869096 PubMed]

• genes: [gene|22215066A7BEA4E53189DE6639C19D1AD86DA7F4|yhfU]-[gene|5050649605DD782AF10FC0AEEA5F14036EC0197D|yhfT]-[gene|CF6B79564DBED3C6CAF64D01BD01D2A03675F16F|yhfS]-[gene|73CB11C654E7A92D6F59B00E0710D3AA1FD2F099|yhfR]
  description: [Pubmed|22383849]

  regulatory mechanism

  • [protein|F761DBCE3429C99159F8F7CD8596FD9CF2D0589D|BirA]: repression, [Pubmed|11717296], in [regulon|F761DBCE3429C99159F8F7CD8596FD9CF2D0589D|BirA regulon]

  regulation

  • repressed in the presence of biotin ([protein|search|BirA]) [Pubmed|11717296]

  additional information

  • weakly expressed [http://www.ncbi.nlm.nih.gov/sites/entrez/10869096 PubMed]

• genes: [gene|5050649605DD782AF10FC0AEEA5F14036EC0197D|yhfT]-[gene|CF6B79564DBED3C6CAF64D01BD01D2A03675F16F|yhfS]-[gene|73CB11C654E7A92D6F59B00E0710D3AA1FD2F099|yhfR]
  description: [Pubmed|22383849]

  additional information

  • weakly expressed [http://www.ncbi.nlm.nih.gov/sites/entrez/10869096 PubMed]

Biological materials

Mutant

• MGNA-A243 (yhfR::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/243 NBRP B. subtilis, Japan]
• BKE10340 ([gene|73CB11C654E7A92D6F59B00E0710D3AA1FD2F099|yhfR]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE10340 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATAAAATCCCCTTCCTGAC, downstream forward: _UP4_TAAGAAAAAGACAGGCGTTT
• BKK10340 ([gene|73CB11C654E7A92D6F59B00E0710D3AA1FD2F099|yhfR]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK10340 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATAAAATCCCCTTCCTGAC, downstream forward: _UP4_TAAGAAAAAGACAGGCGTTT

References

• 17693564,10869096,19935659,11827481,11514674