4CW3 image
Entry Detail
PDB ID:
4CW3
Keywords:
Title:
Crystal structure of cofactor-free urate oxidase in complex with the 5-peroxo derivative of 9-metyl uric acid (X-ray dose, 665 kGy)
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2014-04-01
Release Date:
2014-10-29
Method Details:
Experimental Method:
Resolution:
1.34 Å
R-Value Free:
0.13
R-Value Work:
0.10
R-Value Observed:
0.11
Space Group:
I 2 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:URICASE
Chain IDs:A
Chain Length:301
Number of Molecules:1
Biological Source:ASPERGILLUS FLAVUS
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
SAC A SER N-ACETYL-SERINE
Primary Citation
Direct evidence for a peroxide intermediate and a reactive enzyme-substrate-dioxygen configuration in a cofactor-free oxidase.
Angew. Chem. Int. Ed. Engl. 53 13710 13714 (2014)
PMID: 25314114 DOI: 10.1002/anie.201405485

Abstact

Cofactor-free oxidases and oxygenases promote and control the reactivity of O2 with limited chemical tools at their disposal. Their mechanism of action is not completely understood and structural information is not available for any of the reaction intermediates. Near-atomic resolution crystallography supported by in crystallo Raman spectroscopy and QM/MM calculations showed unambiguously that the archetypical cofactor-free uricase catalyzes uric acid degradation via a C5(S)-(hydro)peroxide intermediate. Low X-ray doses break specifically the intermediate C5-OO(H) bond at 100 K, thus releasing O2 in situ, which is trapped above the substrate radical. The dose-dependent rate of bond rupture followed by combined crystallographic and Raman analysis indicates that ionizing radiation kick-starts both peroxide decomposition and its regeneration. Peroxidation can be explained by a mechanism in which the substrate radical recombines with superoxide transiently produced in the active site.

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