araD [2019-08-08 10:17:12]

L-ribulose-phosphate 4-epimerase

locus: BSU_28780

pI: 5.24

mw: 25.54 kDa

protein length: 229 aa

gene length: 690 bp

function: arabinose utilization

product: L-ribulose-phosphate 4-epimerase

essential: no

ec: 5.1.3.4

synonyms

Genomic Context

categories

• [category|SW 2|Metabolism] → [category|SW 2.2|Carbon metabolism] → [category|SW 2.2.2|Utilization of specific carbon sources] → [category|SW 2.2.2.6|Utilization of arabinan/ arabinose/ arabitol]

Gene

Coordinates: 2,944,983 2,945,672

The protein

Catalyzed reaction/ biological activity

• L-ribulose 5-phosphate = D-xylulose 5-phosphate (according to Swiss-Prot)

Protein family

• aldolase class II family (with [protein|337F1E27C2E380DF8DCADE3581F74CFF52AFD224|MtnB], according to UniProt)

Structure

• [PDB|1K0W] (from '' Escherichia coli'', 59% identity, 74% similarity) [Pubmed|11732895]

Expression and Regulation

Operons

• genes: [gene|028428CE456E283C065756878EA7C7DB495DD10D|araA]-[gene|E0525A4187D9C8A23F23BC8F883973896C8D295D|araB]-[gene|3859854178E573AE8ACCE6DF85E32C495D316DA1|araD]-[gene|BBAD1638F435791C1846EFFAD6B6F82CE491FDF1|araL]-[gene|16EE17461B4AB467A4F8172FD3E335073AD2B1D8|araM]-[gene|C1F5D0EA21DCA5F8EC43720CDF67E859CA7B866E|araN]-[gene|8AF43CA410F3381209196E1B9A4FE66D78020793|araP]-[gene|AE532A8931D516CC676E765D1D1293E73C335D23|araQ]-[gene|2B2629D275491A9F7031D5A99BAA001B011A765B|abfA]
  description: [Pubmed|9084180]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|9084180], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

  regulatory mechanism

  • [protein|E39AFEB7B7F28969A35C4B51CC6E7819F71C79D9|CcpA]: repression, [Pubmed|12949161], in [regulon|E39AFEB7B7F28969A35C4B51CC6E7819F71C79D9|CcpA regulon]
  • [protein|A567466894AE9DE7CDE7816615433A37532297B5|AraR]: repression, [Pubmed|10417639], in [regulon|A567466894AE9DE7CDE7816615433A37532297B5|AraR regulon]

  regulation

  • induced by arabinose ([protein|search|AraR]) [Pubmed|10417639]

  additional information

  • the mRNA is very stable (half-life > 15 min) [http://www.ncbi.nlm.nih.gov/sites/entrez/12884008 PubMed]

Biological materials

Mutant

• BKE28780 ([gene|3859854178E573AE8ACCE6DF85E32C495D316DA1|araD]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE28780 BGSC], [Pubmed|28189581], upstream reverse: _UP1_TTCAAGCATGCTCCATCACC, downstream forward: _UP4_CATTTTTATCGAAAACACGG
• BKK28780 ([gene|3859854178E573AE8ACCE6DF85E32C495D316DA1|araD]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK28780 BGSC], [Pubmed|28189581], upstream reverse: _UP1_TTCAAGCATGCTCCATCACC, downstream forward: _UP4_CATTTTTATCGAAAACACGG

References

• 2500424,9084180,10417639,12949161,9084180