5DNL image
Entry Detail
PDB ID:
5DNL
Keywords:
Title:
Crystal structure of IGPD from Pyrococcus furiosus in complex with (S)-C348
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2015-09-10
Release Date:
2016-09-28
Method Details:
Experimental Method:
Resolution:
1.53 Å
R-Value Free:
0.14
R-Value Work:
0.13
R-Value Observed:
0.13
Space Group:
I 4 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Imidazoleglycerol-phosphate dehydratase
Chain IDs:A, B (auth: C), C (auth: B)
Chain Length:176
Number of Molecules:3
Biological Source:Pyrococcus furiosus
Primary Citation
Mirror-Image Packing Provides a Molecular Basis for the Nanomolar Equipotency of Enantiomers of an Experimental Herbicide.
Angew.Chem.Int.Ed.Engl. 55 13485 13489 (2016)
PMID: 27717128 DOI: 10.1002/anie.201607185

Abstact

Programs of drug discovery generally exploit one enantiomer of a chiral compound for lead development following the principle that enantiomer recognition is central to biological specificity. However, chiral promiscuity has been identified for a number of enzyme families, which have shown that mirror-image packing can enable opposite enantiomers to be accommodated in an enzyme's active site. Reported here is a series of crystallographic studies of complexes between an enzyme and a potent experimental herbicide whose chiral center forms an essential part of the inhibitor pharmacophore. Initial studies with a racemate at 1.85 Å resolution failed to identify the chirality of the bound inhibitor, however, by extending the resolution to 1.1 Å and by analyzing high-resolution complexes with the enantiopure compounds, we determined that both enantiomers make equivalent pseudosymmetric interactions in the active site, thus mimicking an achiral reaction intermediate.

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