View source for 7b59


==X-ray crystal structure of Sporosarcina pasteurii urease inhibited by Ag(PEt3)Br determined at 1.63 Angstroms==
<StructureSection load='7b59' size='340' side='right'caption='[[7b59]], [[Resolution|resolution]] 1.63&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[7b59]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Sporosarcina_pasteurii Sporosarcina pasteurii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7B59 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7B59 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]] 1.63&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AG:SILVER+ION'>AG</scene>, <scene name='pdbligand=CXM:N-CARBOXYMETHIONINE'>CXM</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=7b59 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7b59 OCA], [https://pdbe.org/7b59 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7b59 RCSB], [https://www.ebi.ac.uk/pdbsum/7b59 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7b59 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/URE3_SPOPA URE3_SPOPA] 
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Soft metal ions can inactivate urease, a Ni(II)-dependent enzyme whose hydrolytic activity has significant implications in agro-environmental science and human health. Kinetic and structural studies of the reaction of Canavalia ensiformis urease (JBU) and Sporosarcina pasteurii urease (SPU) with Ag(I) compounds of general formula [Ag(PEt(3))X](4) (X = Cl, Br, I), and with the ionic species [Ag(PEt(3))(2)]NO(3), revealed the role of the Ag(I) ion and its ligands in modulating the metal-enzyme interaction. The activity of JBU is obliterated by the [Ag(PEt(3))X](4) complexes, with IC(50) values in the nanomolar range; the efficiency of the inhibition increases in the Cl(-) &lt; Br(-) &lt; I(-) order. The activity of JBU upon [Ag(PEt(3))(2)]NO(3) addition decreases to a plateau corresponding to ca. 60% of the original activity and decreases with time at a reduced rate. Synchrotron X-ray crystallography on single crystals obtained after the incubation of SPU with the Ag(I) complexes yielded high-resolution (1.63-1.97 A) structures. The metal-protein adducts entail a dinuclear Ag(I) cluster bound to the conserved residues alphaCys322, alphaHis323, and alphaMet367, with a bridging cysteine thiolate atom, a weak Ag(...)Ag bond, and a quasi-linear Ag(I) coordination geometry. These observations suggest a mechanism that involves the initial substitution of the phosphine ligand, followed by a structural rearrangement to yield the dinuclear Ag(I) cluster. These findings indicate that urease, in addition to the active site dinuclear Ni(II) cluster, possesses a secondary metal binding site, located on the mobile flap domain, capable of recognizing pairs of soft metal ions and controlling catalysis.

Kinetic and structural analysis of the inactivation of urease by mixed-ligand phosphine halide Ag(I) complexes.,Mazzei L, Cirri D, Cianci M, Messori L, Ciurli S J Inorg Biochem. 2021 May;218:111375. doi: 10.1016/j.jinorgbio.2021.111375. Epub , 2021 Jan 29. PMID:33711632<ref>PMID:33711632</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 7b59" style="background-color:#fffaf0;"></div>
== References ==
<references/>
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</StructureSection>
[[Category: Large Structures]]
[[Category: Sporosarcina pasteurii]]
[[Category: Cianci M]]
[[Category: Ciurli S]]
[[Category: Mazzei L]]