ywlF [2019-07-15 08:28:40]

ribose-5-phosphate isomerase

locus: BSU_36920

pI: 5.42

mw: 16.07 kDa

protein length: 149 aa

gene length: 450 bp

function: pentose phosphate pathway

product: ribose-5-phosphate isomerase

essential: no

ec: 5.3.1.-

synonyms: ipc-32d

Genomic Context

categories

• [category|SW 2|Metabolism] → [category|SW 2.2|Carbon metabolism] → [category|SW 2.2.1|Carbon core metabolism] → [category|SW 2.2.1.3|Pentose phosphate pathway]
• [category|SW 3|Information processing] → [category|SW 3.1|Genetics] → [category|SW 3.1.9|Newly identified competence genes]

Gene

Coordinates: 3,791,199 3,791,648

Phenotypes of a mutant

• poor growth [pubmed|28189581]
• poorly transformable [pubmed|28189581]

The protein

Protein family

• lacAB/rpiB family (according to Swiss-Prot)

Kinetic information

• Reversible Mass Action Kinetics [Pubmed|956158] [Pubmed|7144591]

Effectors of protein activity

• Inhibited by 6-phosphogluconate and AMP [Pubmed|7144591]
• Inhibited by divalent ions such as Ag2+, Mg2+, Co2+ and Zn2+ [Pubmed|956158]
• Activated by EDTA and 2-mercaptoethanol [Pubmed|7144591]

Structure

• [PDB|3HEE] (from ''Clostridium thermocellum'', 55% identity, 72% similarity) [pubmed|21253719]

Additional information

• The enzyme has probably more than one active site, but with no cooperativity described [Pubmed|7144591]

Expression and Regulation

Operons

• genes: [gene|91827FEC70F5EEB8B072D06ABA05C19FC54D5F71|ywlF]-[gene|41407DE15D91959DA92799623F1364811C170F35|ywlG]
  description: [Pubmed|12823818]

  regulatory mechanism

  • [protein|857EF1AC54DEA0690C01B7F8CEFFD16312C58F20|TnrA]: repression, [Pubmed|12823818], in [regulon|857EF1AC54DEA0690C01B7F8CEFFD16312C58F20|TnrA regulon]

  regulation

  • repressed in the absence of good nitrogen sources (glutamine or ammonium) ([protein|search|TnrA]) [Pubmed|12823818]

• genes: [gene|19829F6D993188BE854F0F61CB93777AD04CF754|ywlD]-[gene|1BAD28287257F82F907706AFD2E8FF5F3BD1B57B|ywlE]-[gene|91827FEC70F5EEB8B072D06ABA05C19FC54D5F71|ywlF]-[gene|41407DE15D91959DA92799623F1364811C170F35|ywlG]
  description: [Pubmed|22383849]

• genes: [gene|1BAD28287257F82F907706AFD2E8FF5F3BD1B57B|ywlE]-[gene|91827FEC70F5EEB8B072D06ABA05C19FC54D5F71|ywlF]-[gene|41407DE15D91959DA92799623F1364811C170F35|ywlG]
  description: [Pubmed|22383849]

Biological materials

Mutant

• BKE36920 ([gene|91827FEC70F5EEB8B072D06ABA05C19FC54D5F71|ywlF]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE36920 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATCTGCTTTTCCTCCCAGC, downstream forward: _UP4_AAAAACCTGTAGGGGTGCTG
• BKK36920 ([gene|91827FEC70F5EEB8B072D06ABA05C19FC54D5F71|ywlF]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK36920 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATCTGCTTTTCCTCCCAGC, downstream forward: _UP4_AAAAACCTGTAGGGGTGCTG

FLAG-tag construct

• GP1404 (spc, based on [SW|pGP1331]), available in [SW|Jörg Stülke]'s lab

Antibody

• **

References

• 25755103,12823818,19446032,956158,7144591,956158,21253719,28189581