UbiD protein domain

In molecular biology this protein domain, refers to UbiD, which is found in prokaryotes, archaea and fungi, with two members in Archaeoglobus fulgidus. They are related to UbiD, a 3-octaprenyl-4-hydroxybenzoate carboxy-lyase from Escherichia coli that is involved in ubiquinone biosynthesis.[1] The member from Helicobacter pylori has a C-terminal extension of just over 100 residues that is shared, in part, by the Aquifex aeolicus homologue.

UbiD
crystal structure of 3-octaprenyl-4-hydroxybenzoate decarboxylase (ubid) from escherichia coli, northeast structural genomics target er459.
Identifiers
SymbolUbiD
PfamPF01977
InterProIPR002830
Available protein structures:
Pfam  structures / ECOD  
PDBRCSB PDB; PDBe; PDBj
PDBsumstructure summary

Function

Ubiquinone is an essential electron carrier in prokaryotes. In Escherichia coli, the Ubiquinone biosynthesis pathway involves at least nine reactions whereby 3-octaprenyl4-hydroxybenzoate decarboxylase (UbiD) is an enzyme on the pathway which catalyses the conversion of the substrate 3-octaprenyl-4-hydroxybenzoate to the product, 2-octaprenyl phenol.[2] E. coli ubiD- mutants have defects in Q8 biosynthesis, accumulate 4-hydroxy-3-octaprenylbenzoicacid (HP8B), and lack decarboxylase activity in vitro. However, E. coli ubiD- mutants retained the ability to produce about 20–25% of the normal levels of Q 4-hydroxy-3-octaprenylbenzoic acid.[3] In essence, the protein domain, UbiD, is vital to creating ubiquinone, an essential electron carrier in the creation on energy.

References
  1. Zhang H, Javor GT (November 2000). "Identification of the ubiD gene on the Escherichia coli chromosome". J. Bacteriol. 182 (21): 6243–6. doi:10.1128/jb.182.21.6243-6246.2000. PMC 94763. PMID 11029449.
  2. Liu J, Liu JH (2006). "Ubiquinone (coenzyme Q) biosynthesis in Chlamydophila pneumoniae AR39: identification of the ubiD gene". Acta Biochim Biophys Sin (Shanghai). 38 (10): 725–30. doi:10.1111/j.1745-7270.2006.00214.x. PMID 17033719.
  3. Gulmezian M, Hyman KR, Marbois BN, Clarke CF, Javor GT (2007). "The role of UbiX in Escherichia coli coenzyme Q biosynthesis". Arch Biochem Biophys. 467 (2): 144–53. doi:10.1016/j.abb.2007.08.009. PMC 2475804. PMID 17889824.
This article incorporates text from the public domain Pfam and InterPro: IPR002830
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