6hrj: Difference between revisions
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==Apo - YndL== | ==Apo - YndL== | ||
<StructureSection load='6hrj' size='340' side='right' caption='[[6hrj]], [[Resolution|resolution]] 1.70Å' scene=''> | <StructureSection load='6hrj' size='340' side='right'caption='[[6hrj]], [[Resolution|resolution]] 1.70Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[6hrj]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HRJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HRJ FirstGlance]. <br> | <table><tr><td colspan='2'>[[6hrj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HRJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HRJ FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=010:PHENYLMETHANOL'>010</scene>, <scene name='pdbligand=FAH:FLUOROACETIC+ACID'>FAH</scene>, <scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=010:PHENYLMETHANOL'>010</scene>, <scene name='pdbligand=FAH:FLUOROACETIC+ACID'>FAH</scene>, <scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> | ||
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5onl|5onl]]</td></tr> | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5onl|5onl]]</td></tr> | ||
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">B4417_0239 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</td></tr> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6hrj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hrj OCA], [http://pdbe.org/6hrj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hrj RCSB], [http://www.ebi.ac.uk/pdbsum/6hrj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hrj ProSAT]</span></td></tr> | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6hrj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hrj OCA], [http://pdbe.org/6hrj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hrj RCSB], [http://www.ebi.ac.uk/pdbsum/6hrj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hrj ProSAT]</span></td></tr> | ||
</table> | </table> | ||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
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-gamma-glutamic acid (gamma-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 gamma-PGA hydrolases, which can dismantle the gamma-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 gamma-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 gamma-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. | |||
The structure of PghL hydrolase bound to its substrate poly-gamma-glutamate.,Ramaswamy S, Rasheed M, Morelli CF, Calvio C, Sutton BJ, Pastore A FEBS J. 2018 Dec;285(24):4575-4589. doi: 10.1111/febs.14688. Epub 2018 Nov 19. PMID:30387270<ref>PMID:30387270</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 6hrj" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Vibrio subtilis ehrenberg 1835]] | |||
[[Category: Large Structures]] | |||
[[Category: Calvio, C]] | [[Category: Calvio, C]] | ||
[[Category: Morelli, C]] | [[Category: Morelli, C]] | ||
Latest revision as of 15:42, 13 March 2019
Apo - YndLApo - YndL
Structural highlights
Publication Abstract from PubMedThe 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-gamma-glutamic acid (gamma-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 gamma-PGA hydrolases, which can dismantle the gamma-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 gamma-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 gamma-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. The structure of PghL hydrolase bound to its substrate poly-gamma-glutamate.,Ramaswamy S, Rasheed M, Morelli CF, Calvio C, Sutton BJ, Pastore A FEBS J. 2018 Dec;285(24):4575-4589. doi: 10.1111/febs.14688. Epub 2018 Nov 19. PMID:30387270[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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