6QO4 image
Entry Detail
PDB ID:
6QO4
Keywords:
Title:
Crystal structure of TrmD, a tRNA-(N1G37) methyltransferase, from Mycobacterium abscessus in complex with Fragment 3 (2-(5-Isoxazolyl) phenol)
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2019-02-12
Release Date:
2020-03-04
Method Details:
Experimental Method:
Resolution:
1.78 Å
R-Value Free:
0.21
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:tRNA (guanine-N(1)-)-methyltransferase
Chain IDs:A, B
Chain Length:244
Number of Molecules:2
Biological Source:Mycobacterium abscessus
Ligand Molecules
Primary Citation
Fragment-based discovery of a new class of inhibitors targeting mycobacterial tRNA modification.
Nucleic Acids Res. 48 8099 8112 (2020)
PMID: 32602532 DOI: 10.1093/nar/gkaa539

Abstact

Translational frameshift errors are often deleterious to the synthesis of functional proteins and could therefore be promoted therapeutically to kill bacteria. TrmD (tRNA-(N(1)G37) methyltransferase) is an essential tRNA modification enzyme in bacteria that prevents +1 errors in the reading frame during protein translation and represents an attractive potential target for the development of new antibiotics. Here, we describe the application of a structure-guided fragment-based drug discovery approach to the design of a new class of inhibitors against TrmD in Mycobacterium abscessus. Fragment library screening, followed by structure-guided chemical elaboration of hits, led to the rapid development of drug-like molecules with potent in vitro TrmD inhibitory activity. Several of these compounds exhibit activity against planktonic M. abscessus and M. tuberculosis as well as against intracellular M. abscessus and M. leprae, indicating their potential as the basis for a novel class of broad-spectrum mycobacterial drugs.

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Primary Citation of related structures