5AH2 image
Deposition Date 2015-02-04
Release Date 2015-06-03
Last Version Date 2024-01-10
Entry Detail
PDB ID:
5AH2
Title:
The sliding clamp of Mycobacterium smegmatis in complex with a natural product.
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.13 Å
R-Value Free:
0.23
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:DNA POLYMERASE III SUBUNIT BETA
Gene (Uniprot):dnaN
Chain IDs:A, B, C, D
Chain Length:401
Number of Molecules:4
Biological Source:MYCOBACTERIUM SMEGMATIS
Polymer Type:polypeptide(L)
Molecule:GRISELIMYCIN
Chain IDs:E, F, G, H
Chain Length:11
Number of Molecules:4
Biological Source:STREPTOMYCES CAELICUS
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
MP8 E PRO (4R)-4-METHYL-L-PROLINE
MVA E VAL N-METHYLVALINE
NZC E THR N-METHYLIDENE-L-THREONINE
Ligand Molecules
Peptide-like Molecules
PRD_002311
Primary Citation

Abstact

The discovery of Streptomyces-produced streptomycin founded the age of tuberculosis therapy. Despite the subsequent development of a curative regimen for this disease, tuberculosis remains a worldwide problem, and the emergence of multidrug-resistant Mycobacterium tuberculosis has prioritized the need for new drugs. Here we show that new optimized derivatives from Streptomyces-derived griselimycin are highly active against M. tuberculosis, both in vitro and in vivo, by inhibiting the DNA polymerase sliding clamp DnaN. We discovered that resistance to griselimycins, occurring at very low frequency, is associated with amplification of a chromosomal segment containing dnaN, as well as the ori site. Our results demonstrate that griselimycins have high translational potential for tuberculosis treatment, validate DnaN as an antimicrobial target, and capture the process of antibiotic pressure-induced gene amplification.

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Primary Citation of related structures