ISDA

Entry Detail

PDB ID:

4DW6

Keywords:

Title:

Novel N-phenyl-phenoxyacetamide derivatives as potential EthR inhibitors and ethionamide boosters. Discovery and optimization using High-Throughput Synthesis.

Biological Source:

Source Organism:

Mycobacterium tuberculosis

Host Organism:

Escherichia coli

PDB Version:

Deposition Date:

2012-02-24

Release Date:

2013-03-27

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.00 Å

R-Value Free:

0.21

R-Value Work:

0.18

R-Value Observed:

0.18

Space Group:

P 41 21 2

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Description:HTH-type transcriptional regulator EthR
Chain IDs:A
Chain Length:236
Number of Molecules:1
Biological Source:Mycobacterium tuberculosis

UniProt ID:P9WMC1 Pfam ID:PF00440, PF21313

Ligand Molecules

0MN

GOL

NH4

Primary Citation

Discovery of novel N-phenylphenoxyacetamide derivatives as EthR inhibitors and ethionamide boosters by combining high-throughput screening and synthesis.

Flipo, M, Willand, N, Lecat-Guillet, N, Hounsou, C, Desroses, M, Leroux, F, Lens, Z, Villeret, V, Wohlkonig, A, Wintjens, R, Christophe, T, Kyoung Jeon, H, Locht, C, Brodin, P, Baulard, A.R, Deprez, B.Show

J.Med.Chem. 55 6391 6402 (2012)

PMID: 22738293 DOI: 10.1021/jm300377g

Abstact

In this paper, we describe the screening of a 14640-compound library using a novel whole mycobacteria phenotypic assay to discover inhibitors of EthR, a transcriptional repressor implicated in the innate resistance of Mycobacterium tuberculosis to the second-line antituberculosis drug ethionamide. From this screening a new chemical family of EthR inhibitors bearing an N-phenylphenoxyacetamide motif was identified. The X-ray structure of the most potent compound crystallized with EthR inspired the synthesis of a 960-member focused library. These compounds were tested in vitro using a rapid thermal shift assay on EthR to accelerate the optimization. The best compounds were synthesized on a larger scale and confirmed as potent ethionamide boosters on M. tuberculosis -infected macrophages. Finally, the cocrystallization of the best optimized analogue with EthR revealed an unexpected reorientation of the ligand in the binding pocket.

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Primary Citation of related structures