5DYQ image
Deposition Date 2015-09-25
Release Date 2016-06-08
Last Version Date 2024-10-16
Entry Detail
PDB ID:
5DYQ
Keywords:
Title:
AbyU L73M L139M
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.66 Å
R-Value Free:
0.21
R-Value Work:
0.18
R-Value Observed:
0.19
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:YD repeat-containing protein
Mutagens:L73M, L139M
Chain IDs:A, B, C, D
Chain Length:160
Number of Molecules:4
Biological Source:Verrucosispora maris
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
MSE A MET modified residue
Ligand Molecules
Primary Citation
The Catalytic Mechanism of a Natural Diels-Alderase Revealed in Molecular Detail.
J.Am.Chem.Soc. 138 6095 6098 (2016)
PMID: 27140661 DOI: 10.1021/jacs.6b00232

Abstact

The Diels-Alder reaction, a [4 + 2] cycloaddition of a conjugated diene to a dienophile, is one of the most powerful reactions in synthetic chemistry. Biocatalysts capable of unlocking new and efficient Diels-Alder reactions would have major impact. Here we present a molecular-level description of the reaction mechanism of the spirotetronate cyclase AbyU, an enzyme shown here to be a bona fide natural Diels-Alderase. Using enzyme assays, X-ray crystal structures, and simulations of the reaction in the enzyme, we reveal how linear substrate chains are contorted within the AbyU active site to facilitate a transannular pericyclic reaction. This study provides compelling evidence for the existence of a natural enzyme evolved to catalyze a Diels-Alder reaction and shows how catalysis is achieved.

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Protein

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Primary Citation of related structures