Literature DB >> 15446943

Transition path sampling study of classical rate-promoting vibrations.

Dimitri Antoniou1, Mohammad Ramin Abolfath, Steven D Schwartz.   

Abstract

It is now widely accepted that there is a class of enzymatic proton transfer reactions, which proceed through quantum tunneling. In a series of papers we have argued that some experimental features of these reactions can be explained by assuming the presence of a "rate-promoting" vibration which brings donor and acceptor closer together, thus leading to rate enhancement. There has never been a study of this effect for classical systems. We used transition path sampling to study the equivalent classical problem and found a complicated dynamical behavior that cannot be captured by transition state theory. Slow promoting vibrations lead to reactive trajectories that overshoot the saddle point, but on the other hand the short period of fast oscillations allows the reactants to stay only briefly in a low-barrier regime. There is a competition between these effects, which results to an intermediate value for the frequency of the rate-promoting vibration that is optimal for enhancing the rate. (c) 2004 American Institute of Physics

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Year:  2004        PMID: 15446943     DOI: 10.1063/1.1782813

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  6 in total

1.  Protein dynamics and catalysis: the problems of transition state theory and the subtlety of dynamic control.

Authors:  J R E T Pineda; S D Schwartz
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2006-08-29       Impact factor: 6.237

2.  Transition States and transition state analogue interactions with enzymes.

Authors:  Vern L Schramm
Journal:  Acc Chem Res       Date:  2015-04-07       Impact factor: 22.384

3.  Role of Protein Motions in Catalysis by Formate Dehydrogenase.

Authors:  Dimitri Antoniou; Steven D Schwartz
Journal:  J Phys Chem B       Date:  2020-10-16       Impact factor: 2.991

4.  Heavy-enzyme kinetic isotope effects on proton transfer in alanine racemase.

Authors:  Michael D Toney; Joan Nieto Castro; Trevor A Addington
Journal:  J Am Chem Soc       Date:  2013-02-05       Impact factor: 15.419

5.  Phase Space Bottlenecks in Enzymatic Reactions.

Authors:  Dimitri Antoniou; Steven D Schwartz
Journal:  J Phys Chem B       Date:  2016-01-19       Impact factor: 2.991

6.  Heavy Enzymes and the Rational Redesign of Protein Catalysts.

Authors:  Alan F Scott; Louis Y-P Luk; Iñaki Tuñón; Vicent Moliner; Rudolf K Allemann
Journal:  Chembiochem       Date:  2019-07-24       Impact factor: 3.164

  6 in total

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