View source for 5zhw


==VanYB in complex with D-Alanine-D-Alanine==
<StructureSection load='5zhw' size='340' side='right'caption='[[5zhw]], [[Resolution|resolution]] 2.18&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5zhw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterococcus_faecalis_V583 Enterococcus faecalis V583]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZHW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZHW FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.18&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=DAL:D-ALANINE'>DAL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5zhw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zhw OCA], [https://pdbe.org/5zhw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zhw RCSB], [https://www.ebi.ac.uk/pdbsum/5zhw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zhw ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/VANY_ENTFA VANY_ENTFA] Vancomycin-inducible, penicillin-resistant, DD-carboxypeptidase that hydrolyzes depsipeptide- and D-alanyl-D-alanine-containing peptidoglycan precursors. Insensitive to beta-lactams.
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Vancomycin resistance in Enterococci and its transfer to methicillin-resistant Staphylococcus aureus are challenging problems in health care institutions worldwide. High-level vancomycin resistance is conferred by acquiring either transposable elements of the VanA or VanB type. Enterococcus faecalis VanYB in the VanB-type operon is a d,d-carboxypeptidase that recognizes the peptidyl-d-Ala(4)-d-Ala(5) extremity of peptidoglycan and hydrolyses the terminal d-Ala on the extracellular side of the cell wall, thereby increasing the level of glycopeptide antibiotics resistance. However, at the molecular level, it remains unclear how VanYB manipulates peptidoglycan peptides for vancomycin resistance. In this study, we have determined the crystal structures of E. faecalis VanYB in the d-Ala-d-Ala-bound, d-Ala-bound, and -unbound states. The interactions between VanYB and d-Ala-d-Ala observed in the crystal provide the molecular basis for the recognition of peptidoglycan substrates by VanYB. Moreover, comparisons with the related VanX and VanXY enzymes reveal distinct structural features of E. faecalis VanYB around the active-site cleft, thus shedding light on its unique substrate specificity. Our results could serve as the foundation for unravelling the molecular mechanism of vancomycin resistance and for developing novel antibiotics against the vancomycin-resistant Enterococcus species.

Structural basis for the substrate recognition of peptidoglycan pentapeptides by Enterococcus faecalis VanYB.,Kim HS, Hahn H, Kim J, Jang DM, Lee JY, Back JM, Im HN, Kim H, Han BW, Suh SW Int J Biol Macromol. 2018 Jul 27;119:335-344. doi:, 10.1016/j.ijbiomac.2018.07.081. PMID:30016658<ref>PMID:30016658</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5zhw" style="background-color:#fffaf0;"></div>

==See Also==
*[[Carboxypeptidase 3D structures|Carboxypeptidase 3D structures]]
== References ==
<references/>
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</StructureSection>
[[Category: Enterococcus faecalis V583]]
[[Category: Large Structures]]
[[Category: Hahn H]]
[[Category: Kim HS]]