A Brownian dynamics simulation method has been implemented to study the superoxide-superoxide dismutase association reaction. Electrostatic potential and forces are calculated solving the linearized finite difference Poisson-Boltzmann equation. The accuracy of the algorithm has been tested carrying out simulations at different ionic strength values on bovine Cu,Zn superoxide dismutase (SOD), whose three-dimensional structure is known at 2 Angstrom resolution, and comparing the calculated association rates with the experimentally determined catalytic rates. Application of the algorithm to six Cu,Zn SOD variants shows that simulations well reproduce the experimental catalytic rate and demonstrates that the diffusion of the superoxide anion to the active site copper is the rate-Limiting step in the catalytic process of Cu,Zn superoxide dismutase.

Sergi, A., Ferrario, M., Polticelli, F., Oneill, P., Desideri, A. (1994). SIMULATION OF SUPEROXIDE SUPEROXIDE-DISMUTASE ASSOCIATION RATE FOR 6 NATURAL VARIANTS - COMPARISON WITH THE EXPERIMENTAL CATALYTIC RATE RID F-8515-2010 RID B-8461-2008 RID A-4573-2009. THE JOURNAL OF PHYSICAL CHEMISTRY, 98(41), 10554-10557 [10.1021/j100092a027 WC Chemistry, Physical].

SIMULATION OF SUPEROXIDE SUPEROXIDE-DISMUTASE ASSOCIATION RATE FOR 6 NATURAL VARIANTS - COMPARISON WITH THE EXPERIMENTAL CATALYTIC RATE RID F-8515-2010 RID B-8461-2008 RID A-4573-2009

POLTICELLI, Fabio;
1994

Abstract

A Brownian dynamics simulation method has been implemented to study the superoxide-superoxide dismutase association reaction. Electrostatic potential and forces are calculated solving the linearized finite difference Poisson-Boltzmann equation. The accuracy of the algorithm has been tested carrying out simulations at different ionic strength values on bovine Cu,Zn superoxide dismutase (SOD), whose three-dimensional structure is known at 2 Angstrom resolution, and comparing the calculated association rates with the experimentally determined catalytic rates. Application of the algorithm to six Cu,Zn SOD variants shows that simulations well reproduce the experimental catalytic rate and demonstrates that the diffusion of the superoxide anion to the active site copper is the rate-Limiting step in the catalytic process of Cu,Zn superoxide dismutase.
Sergi, A., Ferrario, M., Polticelli, F., Oneill, P., Desideri, A. (1994). SIMULATION OF SUPEROXIDE SUPEROXIDE-DISMUTASE ASSOCIATION RATE FOR 6 NATURAL VARIANTS - COMPARISON WITH THE EXPERIMENTAL CATALYTIC RATE RID F-8515-2010 RID B-8461-2008 RID A-4573-2009. THE JOURNAL OF PHYSICAL CHEMISTRY, 98(41), 10554-10557 [10.1021/j100092a027 WC Chemistry, Physical].
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/11590/137967
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