5ONJ
YnDL in Complex with 5 amino acid (PGA) complex
Summary for 5ONJ
| Entry DOI | 10.2210/pdb5onj/pdb |
| Descriptor | YndL, (2R,3S,4R,5R,6R)-6-((1R,2R,3S,4R,6S)-4,6-DIAMINO-2,3-DIHYDROXYCYCLOHEXYLOXY)-5-AMINO-2-(AMINOMETHYL)-TETRAHYDRO-2H-PYRAN-3,4-DIOL, ZINC ION, ... (4 entities in total) |
| Functional Keywords | pga-hydrolase, hydrolase |
| Biological source | Bacillus subtilis More |
| Total number of polymer chains | 2 |
| Total formula weight | 24843.81 |
| Authors | Ramaswamy, S.,Rasheed, M.,Morelli, C.,Calvio, C.,Sutton, B.,Pastore, A. (deposition date: 2017-08-03, release date: 2018-08-29, Last modification date: 2024-11-13) |
| Primary citation | Ramaswamy, S.,Rasheed, M.,Morelli, C.F.,Calvio, C.,Sutton, B.J.,Pastore, A. The structure of PghL hydrolase bound to its substrate poly-gamma-glutamate. Febs J., 285:4575-4589, 2018 Cited by PubMed Abstract: The identification of new strategies to fight bacterial infections in view of the spread of multiple resistance to antibiotics has become mandatory. It has been demonstrated that several bacteria develop poly-γ-glutamic acid (γ-PGA) capsules as a protection from external insults and/or host defence systems. Among the pathogens that shield themselves in these capsules are Bacillus anthracis, Francisella tularensis and several Staphylococcus strains. These are important pathogens with a profound influence on human health. The recently characterised γ-PGA hydrolases, which can dismantle the γ-PGA-capsules, are an attractive new direction that can offer real hope for the development of alternatives to antibiotics, particularly in cases of multidrug resistant bacteria. We have characterised in detail the cleaving mechanism and stereospecificity of the enzyme PghL (previously named YndL) from Bacillus subtilis encoded by a gene of phagic origin and dramatically efficient in degrading the long polymeric chains of γ-PGA. We used X-ray crystallography to solve the three-dimensional structures of the enzyme in its zinc-free, zinc-bound and complexed forms. The protein crystallised with a γ-PGA hexapeptide substrate and thus reveals details of the interaction which could explain the stereospecificity observed and give hints on the catalytic mechanism of this class of hydrolytic enzymes. PubMed: 30387270DOI: 10.1111/febs.14688 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (1.7 Å) |
Structure validation
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