6I9Y image
Entry Detail
PDB ID:
6I9Y
Keywords:
Title:
The 2.14 A X-ray crystal structure of Sporosarcina pasteurii urease in complex with Au(I) ions
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2018-11-26
Release Date:
2019-05-01
Method Details:
Experimental Method:
Resolution:
2.14 Å
R-Value Free:
0.20
R-Value Work:
0.17
R-Value Observed:
0.17
Space Group:
P 63 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Urease subunit gamma
Chain IDs:A
Chain Length:100
Number of Molecules:1
Biological Source:Sporosarcina pasteurii
Polymer Type:polypeptide(L)
Description:Urease subunit beta
Chain IDs:B
Chain Length:122
Number of Molecules:1
Biological Source:Sporosarcina pasteurii
Polymer Type:polypeptide(L)
Description:Urease subunit alpha
Chain IDs:C
Chain Length:570
Number of Molecules:1
Biological Source:Sporosarcina pasteurii
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
CXM A MET modified residue
KCX C LYS modified residue
Primary Citation
Inhibition Mechanism of Urease by Au(III) Compounds Unveiled by X-ray Diffraction Analysis.
Acs Med.Chem.Lett. 10 564 570 (2019)
PMID: 30996797 DOI: 10.1021/acsmedchemlett.8b00585

Abstact

The nickel-dependent enzyme urease is a virulence factor for a large number of critical human pathogens, making this enzyme a potential target of therapeutics for the treatment of resistant bacterial infections. In the search for novel urease inhibitors, five selected coordination and organometallic Au(III) compounds containing N∧N or C∧N and C∧N∧N ligands were tested for their inhibitory effects against Canavalia ensiformis (jack bean) urease. The results showed potent inhibition effects with IC50 values in the nanomolar range. The 2.14 Å resolution crystal structure of Sporosarcina pasteurii urease inhibited by the most effective Au(III) compound [Au(PbImMe)Cl2]PF6 (PbImMe = 1-methyl-2-(pyridin-2-yl)-benzimidazole) reveals the presence of two Au ions bound to the conserved triad αCys322/αHis323/αMet367. The binding of the Au ions to these residues blocks the movement of a flap, located at the edge of the active site channel and essential for enzyme catalysis, completely obliterating the catalytic activity of urease. Overall, the obtained results constitute the basis for the design of new gold complexes as selective urease inhibitors with future antibacterial applications.

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