Quercetin 2,4‐Dioxygenase Activates Dioxygen in a Side‐On O2–Ni Complex

Quercetin 2,4‐dioxygenase (quercetinase) from Streptomyces uses nickel as the active‐site cofactor to catalyze oxidative cleavage of the flavonol quercetin. How this unusual active‐site metal supports catalysis and O₂ activation is under debate. We present crystal structures of Ni‐quercetinase in three different states, thus providing direct insight into how quercetin and O₂ are activated at the Ni²⁺ ion. The Ni²⁺ ion is coordinated by three histidine residues and a glutamate residue (E⁷⁶) in all three states. Upon binding, quercetin replaces one water ligand at Ni and is stabilized by a short hydrogen bond through E⁷⁶, the carboxylate group of which rotates by 90°. This conformational change weakens the interaction between Ni and the remaining water ligand, thereby preparing a coordination site at Ni to bind O₂. O₂ binds side‐on to the Ni²⁺ ion and is perpendicular to the C2?C3 and C3?C4 bonds of quercetin, which are cleaved in the following reaction steps.