Literature DB >> 24424675

Quantum and classical dynamics in biochemical reactions.

W Bialek1, W J Bruno, J Joseph, J N Onuchic.   

Abstract

The classic experiment of deVault and Chance touched off a long series of theoretical and experimental studies of the interplay between quantum and classical dynamics in photosynthetic electron transfer. More recently these issues have also been addressed in experiments on ligand binding reactions in heme proteins and through the study of kinetic isotope effects in enzymatic proton transfer. Theoretical effort has focused on a class of relatively simple models which display a surprisingly rich spectrum of dynamical behavior. Much less attention has been paid to a very important issue: Why are we allowed to use such simple models to describe such obviously complex molecules? Here we provide some tentative answers to this question, contrasting the cases of electron and proton transfer. We suggest that ideas based on simple models can inspire novel strategies for 'realistic' simulations, and that we can begin to think about the general problems of enzymatic catalysis in terms of dynamical pictures that previously have been applied only to the simpler case of electron transfer.

Year:  1989        PMID: 24424675     DOI: 10.1007/BF00114763

Source DB:  PubMed          Journal:  Photosynth Res        ISSN: 0166-8595            Impact factor:   3.573


  11 in total

1.  Electron transfer between biological molecules by thermally activated tunneling.

Authors:  J J Hopfield
Journal:  Proc Natl Acad Sci U S A       Date:  1974-09       Impact factor: 11.205

2.  Femtosecond spectroscopy of excitation energy transfer and initial charge separation in the reaction center of the photosynthetic bacterium Rhodopseudomonas viridis.

Authors:  J Breton; J L Martin; A Migus; A Antonetti; A Orszag
Journal:  Proc Natl Acad Sci U S A       Date:  1986-07       Impact factor: 11.205

3.  Long-range electron transfer in heme proteins.

Authors:  S L Mayo; W R Ellis; R J Crutchley; H B Gray
Journal:  Science       Date:  1986-08-29       Impact factor: 47.728

4.  Primary photochemistry of reaction centers from the photosynthetic purple bacteria.

Authors:  C Kirmaier; D Holten
Journal:  Photosynth Res       Date:  1987-09       Impact factor: 3.573

5.  Protein dynamics and reaction rates: mode-specific chemistry in large molecules?

Authors:  W Bialek; J N Onuchic
Journal:  Proc Natl Acad Sci U S A       Date:  1988-08       Impact factor: 11.205

Review 6.  Conformational substates in proteins.

Authors:  H Frauenfelder; F Parak; R D Young
Journal:  Annu Rev Biophys Biophys Chem       Date:  1988

7.  Multiple conformational states of proteins: a molecular dynamics analysis of myoglobin.

Authors:  R Elber; M Karplus
Journal:  Science       Date:  1987-01-16       Impact factor: 47.728

8.  Molecular dynamics simulations of the holo and apo forms of retinol binding protein. Structural and dynamical changes induced by retinol removal.

Authors:  J Aqvist; P Sandblom; T A Jones; M E Newcomer; W F van Gunsteren; O Tapia
Journal:  J Mol Biol       Date:  1986-12-05       Impact factor: 5.469

9.  Studies of photosynthesis using a pulsed laser. I. Temperature dependence of cytochrome oxidation rate in chromatium. Evidence for tunneling.

Authors:  D DeVault; B Chance
Journal:  Biophys J       Date:  1966-11       Impact factor: 4.033

10.  Do vibrational spectroscopies uniquely describe protein dynamics? The case for myoglobin.

Authors:  W Bialek; R F Goldstein
Journal:  Biophys J       Date:  1985-12       Impact factor: 4.033

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  2 in total

1.  Protein dynamics and electron transfer: electronic decoherence and non-Condon effects.

Authors:  Spiros S Skourtis; Ilya A Balabin; Tsutomu Kawatsu; David N Beratan
Journal:  Proc Natl Acad Sci U S A       Date:  2005-02-28       Impact factor: 11.205

2.  Characterization of azido-NAD+ to assess its potential as a two-dimensional infrared probe of enzyme dynamics.

Authors:  Samrat Dutta; Richard J Cook; Jon C D Houtman; Amnon Kohen; Christopher M Cheatum
Journal:  Anal Biochem       Date:  2010-08-10       Impact factor: 3.365

  2 in total

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