Quantum Mechanical/Molecular Mechanical Investigation of the Mechanism of C−H Hydroxylation of Camphor by Cytochrome P450cam: Theory Supports a Two-State Rebound Mechanism
- 1 March 2004
- journal article
- research article
- Published by American Chemical Society (ACS) in Journal of the American Chemical Society
- Vol. 126 (12) , 4017-4034
- https://doi.org/10.1021/ja039847w
Abstract
The stereospecific cytochrome P450-catalyzed hydroxylation of the C5−H(5-exo) bond in camphor has been studied theoretically by a combined quantum mechanical/molecular mechanical (QM/MM) approach. Density functional theory is employed to treat the electronic structure of the active site (40−100 atoms), while the protein and solvent environment (ca. 24 000 atoms) is described by the CHARMM force field. The calculated energy profile of the hydrogen-abstraction oxygen-rebound mechanism indicates that the reaction takes place in two spin states (doublet and quartet), as has been suggested earlier on the basis of calculations on simpler models (“two-state reactivity”). While the reaction on the doublet potential energy surface is nonsynchronous, yet effectively concerted, the quartet pathway is truly stepwise, including formation of a distinct intermediate substrate radical and a hydroxo−iron complex. Comparative calculations in the gas phase demonstrate the effect of the protein environment on the geometry and relative stability of intermediates (in terms of spin states and redox electromers) through steric constraints and electronic polarization.Keywords
This publication has 95 references indexed in Scilit:
- Does the Hydroperoxo Species of Cytochrome P450 Participate in Olefin Epoxidation with the Main Oxidant, Compound I? Criticism from Density Functional Theory CalculationsBulletin of the Chemical Society of Japan, 2003
- Epoxidation of Olefins by Hydroperoxo−Ferric Cytochrome P450Journal of the American Chemical Society, 2003
- Chameleon States: High-Valent Metal-Oxo Species of Cytochrome P450 and Its Ruthenium AnalogueAngewandte Chemie International Edition in English, 2001
- DL_POLY_2.0: A general-purpose parallel molecular dynamics simulation packagePublished by Elsevier ,1999
- All-Atom Empirical Potential for Molecular Modeling and Dynamics Studies of ProteinsThe Journal of Physical Chemistry B, 1998
- An ab initio treatment of the electronic absorption spectra of excess-electron alkali halide clusters Nan+1Cln up to Na18Cl17The Journal of Chemical Physics, 1995
- CHARMM: A program for macromolecular energy, minimization, and dynamics calculationsJournal of Computational Chemistry, 1983
- Aliphatic hydroxylation by highly purified liver microsomal cytochrome P-450. Evidence for a carbon radical intermediateBiochemical and Biophysical Research Communications, 1978
- Intramolecular determination of primary kinetic isotope effects in hydroxylations catalyzed by cytochrome P-450Biochemical and Biophysical Research Communications, 1977
- Theoretical studies of enzymic reactions: Dielectric, electrostatic and steric stabilization of the carbonium ion in the reaction of lysozymeJournal of Molecular Biology, 1976