8A18 image
Deposition Date 2022-06-01
Release Date 2023-06-14
Last Version Date 2024-02-07
Entry Detail
PDB ID:
8A18
Keywords:
Title:
1.63 A resolution hydroquinone inhibited Sporosarcina pasteurii urease
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
1.63 Å
R-Value Free:
0.15
R-Value Work:
0.12
Space Group:
P 63 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Urease subunit gamma
Gene (Uniprot):ureA
Chain IDs:A (auth: AAA)
Chain Length:100
Number of Molecules:1
Biological Source:Sporosarcina pasteurii
Polymer Type:polypeptide(L)
Molecule:Urease subunit beta
Gene (Uniprot):ureB
Chain IDs:B (auth: BBB)
Chain Length:122
Number of Molecules:1
Biological Source:Sporosarcina pasteurii
Polymer Type:polypeptide(L)
Molecule:Urease subunit alpha
Gene (Uniprot):ureC
Chain IDs:C (auth: CCC)
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 of Urease by Hydroquinones: A Structural and Kinetic Study.
Chemistry 28 e202201770 e202201770 (2022)
PMID: 35994380 DOI: 10.1002/chem.202201770

Abstact

Hydroquinones are a class of organic compounds abundant in nature that result from the full reduction of the corresponding quinones. Quinones are known to efficiently inhibit urease, a NiII -containing enzyme that catalyzes the hydrolysis of urea to yield ammonia and carbonate and acts as a virulence factor of several human pathogens, in addition to decreasing the efficiency of soil organic nitrogen fertilization. Here, we report the molecular characterization of the inhibition of urease from Sporosarcina pasteurii (SPU) and Canavalia ensiformis (jack bean, JBU) by 1,4-hydroquinone (HQ) and its methyl and tert-butyl derivatives. The 1.63-Å resolution X-ray crystal structure of the SPU-HQ complex discloses that HQ covalently binds to the thiol group of αCys322, a key residue located on a mobile protein flap directly involved in the catalytic mechanism. Inhibition kinetic data obtained for the three compounds on JBU reveals the occurrence of an irreversible inactivation process that involves a radical-based autocatalytic mechanism.

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Primary Citation of related structures