5FSD

Target information

RCSB PDB
5FSD
Title
1.75 A resolution 2,5-dihydroxybenzensulfonate inhibited Sporosarcina pasteurii urease
Method
X-RAY DIFFRACTION
Resolution
1.75
Classification
HYDROLASE
Organism
Sporosarcina pasteurii
Protein
Urease subunit gamma (P41022)
Year
2016
Publication Title
Inactivation of Urease by 1,4-Benzoquinone: Chemistry at the Protein Surface.
Abstract

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 crystal structure of SPU bound to BQ shows the presence of a 1,4-hydroquinone moiety covalently bound to the thiol group of ??Cys322, a key residue found on the mobile flap regulating the substrate access to the active site. The 1.75 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 ??Cys322 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.

External Link
RCSB PDB





Ligand information

HET
DBX
Chain ID
C
HET Number
1587
Molecular Formula
C6H4O2
Structure
2D structure
IUPAC Name
1,4-benzoquinone
InChI
InChI=1S/C6H4O2/c7-5-1-2-6(8)4-3-5/h1-4H
InChI Key
AZQWKYJCGOJGHM-UHFFFAOYSA-N
Canonical SMILES
O=C1C=CC(=O)C=C1
Bioactivity data
CI000008

Covalent Binding

Warhead
Michael Acceptor
Reaction Mechanism
Multistep
Residue
CYS : 322
Residue Chain
C
Interactions
Pharmacophore Model