A new paradigm for electrostatic catalysis of radical reactions in vitamin B12 enzymes.
The catalytic power of enzymes containing coenzyme B(12) cofactor has been, in some respects, the "last bastion" for the strain hypothesis. The present work explores the origin of this effect by using simulation methods that overcome the sampling difficulties of previous energy minimization studies. It is found that the major part of the catalytic effect is due to the electrostatic interaction between the ribose and the protein, and that the strain contribution is very small. Remarkably, enzymes can use electrostatic effects even in a radical process, when the charge distribution of the reacting fragments does not change significantly during the reaction. Electrostatic catalysis can, in such cases, be obtained by attaching a polar group to the leaving fragment and designing an active site that interacts more strongly with this group in the product state than in the reactant state. The finding that evolution had to use this trick provides further evidence to the observation that it is extremely hard to catalyze enzymatic reactions by nonelectrostatic factors. The trick used by B(12) enzymes may, in fact, be a very powerful new strategy in enzyme design.
Sharma
Pankaz K
PK
Department of Chemistry, University of Southern California, 418 SGM Building, 3620 McClintock Avenue, Los Angeles, CA 90089-1062, USA.
Chu
Zhen T
ZT
Olsson
Mats H M
MH
Warshel
Arieh
A
D002384:Catalysis; D003038:Cobamides / Q000737:chemistry / Q000378:metabolism*; D003198:Computer Simulation; D019751:Intramolecular Transferases / Q000737:chemistry / Q000378:metabolism*; D008958:Models, Molecular; D015394:Molecular Structure; D055672:Static Electricity
D003038:Cobamides; D019751:Intramolecular Transferases; C000913:cobamamide