5FSD image
Deposition Date 2016-01-04
Release Date 2016-03-23
Last Version Date 2025-10-01
Entry Detail
PDB ID:
5FSD
Keywords:
Title:
1.75 A resolution 2,5-dihydroxybenzensulfonate inhibited Sporosarcina pasteurii urease
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
1.75 Å
R-Value Free:
0.16
R-Value Work:
0.13
R-Value Observed:
0.13
Space Group:
P 63 2 2
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:UREASE SUBUNIT GAMMA
Gene (Uniprot):ureA
Chain IDs:A
Chain Length:100
Number of Molecules:1
Biological Source:SPOROSARCINA PASTEURII
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:UREASE SUBUNIT BETA
Gene (Uniprot):ureB
Chain IDs:B
Chain Length:126
Number of Molecules:1
Biological Source:SPOROSARCINA PASTEURII
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:UREASE SUBUNIT ALPHA
Gene (Uniprot):ureC
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 N-CARBOXYMETHIONINE
KCX C LYS LYSINE NZ-CARBOXYLIC ACID
Primary Citation
Inactivation of Urease by 1,4-Benzoquinone: Chemistry at the Protein Surface.
Dalton Trans 45 5455 ? (2016)
PMID: 26961812 DOI: 10.1039/C6DT00652C

Abstact

The high activity of urease, a Ni(ii) enzyme, has several adverse effects on human health and agriculture, and its modulation needs the use of inhibitors. 1,4-Benzoquinone (BQ) irreversibly inactivates Sporosarcina pasteurii urease (SPU), with first order kinetics for both the inhibitor and the enzyme. This reaction is stoichiometrically quenched in the presence of sulphite. The 2.07 Å crystal structure of SPU bound to BQ shows the presence of a 1,4-hydroquinone moiety covalently bound to the thiol group of αCys322, a key residue found on the mobile flap regulating the substrate access to the active site. The 1.75 Å crystal structure obtained when sulphite is added to a solution of SPU previously incubated with BQ shows the presence of a 2,5-dihydroxy-benzenesulphonate moiety bound to the αCys322 thiol group. These data reveal how the active site cysteine reacts with a prototypical BQ moiety, found in a large number of natural substances potentially suitable to control the urease activity.

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Primary Citation of related structures