2y7e | pdb_00002y7e

Crystal structure of the 3-keto-5-aminohexanoate cleavage enzyme (Kce) from Candidatus Cloacamonas acidaminovorans (tetragonal form)

spinqualitylabelsall models 2y7e, resolution 1.28Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 2y7e is a 2 chain structure with sequence from Candidatus Cloacimonas acidaminovorans. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 1.28Å Ligands: FMT, MG, ZN Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function KCE_CLOAI Catalyzes the deprotonation of the beta-keto acid, nucleophilic addition onto acetyl-CoA, and intramolecular transfer of the CoA moiety to result in 3-aminobutanoyl-CoA and acetoacetate. Publication Abstract from PubMed The exponential increase in genome sequencing output has led to the accumulation of thousands of predicted genes lacking a proper functional annotation. Among this mass of hypothetical proteins, enzymes catalyzing new reactions, or using novel ways to catalyze already known reactions might still wait to be identified. Here, we provide a structural and biochemical characterization of the 3-keto-5-aminohexanoate cleavage enzyme (Kce), an enzymatic activity long time known as involved in the anaerobic fermentation of lysine, but whose catalytic mechanism has remained elusive so far. Although the enzyme shows the ubiquitous TIM barrel fold and a Zn(2+) cation reminiscent of metal-dependent class II aldolases, our results based on a combination of X-ray snapshots and molecular modelling point to an unprecedented mechanism that proceeds through deprotonation of the 3-keto-5-aminohexanoate substrate, nucleophilic addition onto an incoming acetyl-CoA, intramolecular transfer of the CoA moiety and final retro-Claisen reaction leading to acetoacetate and 3-aminobutyryl-CoA. This model also accounts for earlier observations showing the origin of carbon atoms in the products, as well as the absence of detection of any covalent acyl-enzyme intermediate. Kce is the first representative of a large family of prokaryotic hypothetical proteins, currently annotated as the domain of unknown function DUF849. 3-keto-5-aminohexanoate cleavage enzyme: a common fold for an uncommon Claisen-type condensation.,Bellinzoni M, Bastard K, Perret A, Zaparucha A, Perchat N, Vergne C, Wagner T, de Melo-Minardi RC, Artiguenave F, Cohen GN, Weissenbach J, Salanoubat M, Alzari PM J Biol Chem. 2011 Jun 1. PMID:21632536 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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