7b59 | pdb_00007b59

X-ray crystal structure of Sporosarcina pasteurii urease inhibited by Ag(PEt3)Br determined at 1.63 Angstroms

spinqualitylabelsall models 7b59, resolution 1.63Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 7b59 is a 3 chain structure with sequence from Sporosarcina pasteurii. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 1.63Å Ligands: AG, CXM, EDO, KCX, NI, O, SO4 Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function URE3_SPOPA 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(-) < Br(-) < 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 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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