7P2N image
Entry Detail
PDB ID:
7P2N
Title:
E.coli GyrB24 with inhibitor LSJ38 (EBL2684)
Biological Source:
PDB Version:
Deposition Date:
2021-07-06
Release Date:
2022-07-20
Method Details:
Experimental Method:
Resolution:
1.16 Å
R-Value Free:
0.17
R-Value Work:
0.14
R-Value Observed:
0.14
Space Group:
C 1 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:DNA gyrase subunit B
Chain IDs:A
Chain Length:220
Number of Molecules:1
Biological Source:Escherichia coli (strain K12)
Primary Citation
Exploring the 5-Substituted 2-Aminobenzothiazole-Based DNA Gyrase B Inhibitors Active against ESKAPE Pathogens.
Acs Omega 8 24387 24395 (2023)
PMID: 37457471 DOI: 10.1021/acsomega.3c01930

Abstact

We present a new series of 2-aminobenzothiazole-based DNA gyrase B inhibitors with promising activity against ESKAPE bacterial pathogens. Based on the binding information extracted from the cocrystal structure of DNA gyrase B inhibitor A, in complex with Escherichia coli GyrB24, we expanded the chemical space of the benzothiazole-based series to the C5 position of the benzothiazole ring. In particular, compound E showed low nanomolar inhibition of DNA gyrase (IC50 < 10 nM) and broad-spectrum antibacterial activity against pathogens belonging to the ESKAPE group, with the minimum inhibitory concentration < 0.03 μg/mL for most Gram-positive strains and 4-16 μg/mL against Gram-negative E. coli, Acinetobacter baumannii, Pseudomonas aeruginosa, and Klebsiella pneumoniae. To understand the binding mode of the synthesized inhibitors, a combination of docking calculations, molecular dynamics (MD) simulations, and MD-derived structure-based pharmacophore modeling was performed. The computational analysis has revealed that the substitution at position C5 can be used to modify the physicochemical properties and antibacterial spectrum and enhance the inhibitory potency of the compounds. Additionally, a discussion of challenges associated with the synthesis of 5-substituted 2-aminobenzothiazoles is presented.

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