2MN2 image
Deposition Date 2014-03-26
Release Date 2015-04-01
Last Version Date 2024-05-15
Entry Detail
PDB ID:
2MN2
Keywords:
Title:
3D structure of YmoB, a modulator of biofilm formation
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Conformers Calculated:
100
Conformers Submitted:
20
Selection Criteria:
structures with the lowest energy
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:YmoB
Mutations:C117S
Chain IDs:A
Chain Length:133
Number of Molecules:1
Biological Source:Yersinia enterocolitica
Ligand Molecules
Primary Citation
An oxygen-sensitive toxin-antitoxin system.
Nat Commun 7 13634 13634 (2016)
PMID: 27929062 DOI: 10.1038/ncomms13634

Abstact

The Hha and TomB proteins from Escherichia coli form an oxygen-dependent toxin-antitoxin (TA) system. Here we show that YmoB, the Yersinia orthologue of TomB, and its single cysteine variant [C117S]YmoB can replace TomB as antitoxins in E. coli. In contrast to other TA systems, [C117S]YmoB transiently interacts with Hha (rather than forming a stable complex) and enhances the spontaneous oxidation of the Hha conserved cysteine residue to a -SOxH-containing species (sulfenic, sulfinic or sulfonic acid), which destabilizes the toxin. The nuclear magnetic resonance structure of [C117S]YmoB and the homology model of TomB show that the two proteins form a four-helix bundle with a conserved buried cysteine connected to the exterior by a channel with a diameter comparable to that of an oxygen molecule. The Hha interaction site is located on the opposite side of the helix bundle.

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Primary Citation of related structures