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PeerJ. 2016 Dec 20;4:e2805. doi: 10.7717/peerj.2805. eCollection 2016.

Refining the reaction mechanism of O2 towards its co-substrate in cofactor-free dioxygenases.

Author information

1
FP-ENAS/Fac. de Ciências da Saúde, Universidade Fernando Pessoa , Porto , Portugal.

Abstract

Cofactor-less oxygenases perform challenging catalytic reactions between singlet co-substrates and triplet oxygen, in spite of apparently violating the spin-conservation rule. In 1-H-3-hydroxy-4-oxoquinaldine-2,4-dioxygenase, the active site has been suggested by quantum chemical computations to fine tune triplet oxygen reactivity, allowing it to interact rapidly with its singlet substrate without the need for spin inversion, and in urate oxidase the reaction is thought to proceed through electron transfer from the deprotonated substrate to an aminoacid sidechain, which then feeds the electron to the oxygen molecule. In this work, we perform additional quantum chemical computations on these two systems to elucidate several intriguing features unaddressed by previous workers. These computations establish that in both enzymes the reaction proceeds through direct electron transfer from co-substrate to O2 followed by radical recombination, instead of minimum-energy crossing points between singlet and triplet potential energy surfaces without formal electron transfer. The active site does not affect the reactivity of oxygen directly but is crucial for the generation of the deprotonated form of the co-substrates, which have redox potentials far below those of their protonated forms and therefore may transfer electrons to oxygen without sizeable thermodynamic barriers. This mechanism seems to be shared by most cofactor-less oxidases studied so far.

KEYWORDS:

Computational chemistry; DFT; Density-functional theory; Glutamate decarboxylase; Minimum-energy crossing point; Oxygenase; Ring cleaving dioxygenase; Urate oxidase

Conflict of interest statement

Pedro J. Silva is an Academic Editor for PeerJ. The author does not have any other competing interests.

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