Taking Ockham's razor to enzyme dynamics and catalysis.

Nature Chemistry
David R GlowackiAdrian J Mulholland

Abstract

The role of protein dynamics in enzyme catalysis is a matter of intense current debate. Enzyme-catalysed reactions that involve significant quantum tunnelling can give rise to experimental kinetic isotope effects with complex temperature dependences, and it has been suggested that standard statistical rate theories, such as transition-state theory, are inadequate for their explanation. Here we introduce aspects of transition-state theory relevant to the study of enzyme reactivity, taking cues from chemical kinetics and dynamics studies of small molecules in the gas phase and in solution--where breakdowns of statistical theories have received significant attention and their origins are relatively better understood. We discuss recent theoretical approaches to understanding enzyme activity and then show how experimental observations for a number of enzymes may be reproduced using a transition-state-theory framework with physically reasonable parameters. Essential to this simple model is the inclusion of multiple conformations with different reactivity.

References

Mar 14, 1991·Nature·J R Knowles
Mar 10, 1989·Science·Y ChaJ P Klinman
Oct 31, 1995·Biochemistry·M H Glickman, J P Klinman
Mar 13, 1999·Biochemistry·J BasranN S Scrutton
Apr 11, 2002·Journal of the American Chemical Society·Michael J KnappJudith P Klinman
Feb 8, 2003·Science·Peter S ZuevWeston Thatcher Borden
Aug 21, 2003·Journal of the American Chemical Society·Marek StrajblArieh Warshel
Aug 30, 2003·Science·Stephen J Benkovic, Sharon Hammes-Schiffer
Jan 13, 2004·Science·Mireia Garcia-VilocaDonald G Truhlar
Mar 5, 2004·Journal of the American Chemical Society·Mats H M OlssonArieh Warshel
Apr 15, 2004·Journal of the American Chemical Society·R Steven SikorskiAmnon Kohen
Jul 15, 2004·Journal of the American Chemical Society·Giuseppe D RuggieroIñaki Tuñón
Aug 31, 2004·Nature Structural & Molecular Biology·Magnus Wolf-WatzDorothee Kern
Dec 20, 2005·Accounts of Chemical Research·Wei MinX Sunney Xie
Jan 3, 2006·Biophysical Journal·Nikki StricklandJeremy N Harvey
Feb 1, 1958·Proceedings of the National Academy of Sciences of the United States of America·D E Koshland
May 11, 2006·Chemical Reviews·Valerie Daggett
Jun 8, 2006·Annual Review of Biochemistry·Sharon Hammes-Schiffer, Stephen J Benkovic
Sep 8, 2006·The Journal of Physical Chemistry. a·James A Miller, Stephen J Klippenstein
Sep 23, 2006·Angewandte Chemie·Frederik ClaeyssensHans-Joachim Werner
Jan 5, 2007·Proceedings of the National Academy of Sciences of the United States of America·Sam HayNigel S Scrutton
Jun 19, 2007·The Journal of Physical Chemistry. B·Hanbin Liu, Arieh Warshel
Jun 22, 2007·Proceedings of the National Academy of Sciences of the United States of America·Agnieszka Dybala-DefratykaDonald G Truhlar
Aug 7, 2007·Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry·Kara E RanaghanAdrian J Mulholland
Nov 21, 2007·Nature·Katherine A Henzler-WildmanDorothee Kern
Mar 21, 2008·Nature·Daniela RöthlisbergerDavid Baker
Apr 11, 2008·Chemical Communications : Chem Comm·Marc W van der KampAdrian J Mulholland
Jun 13, 2008·Nature·Peter R SchreinerAttila G Császár
Jul 4, 2008·Nature·Stuart J GreavesRichard N Zare
Jul 10, 2008·Journal of the Royal Society, Interface·Marc W van der KampAdrian J Mulholland
Jul 24, 2008·Proceedings of the National Academy of Sciences of the United States of America·Lucy R ForrestGary Rudnick
Feb 27, 2009·The Journal of Physical Chemistry. a·Upakarasamy Lourderaj, William L Hase
Apr 11, 2009·Science·Nobuhiko Tokuriki, Dan S Tawfik
Jul 22, 2009·Nature Chemical Biology·Zachary D Nagel, Judith P Klinman
Jul 22, 2009·Nature Chemical Biology·Steven D Schwartz, Vern L Schramm
Oct 7, 2009·Proceedings of the National Academy of Sciences of the United States of America·Andrei V PisliakovArieh Warshel
Dec 18, 2009·The Journal of Physical Chemistry. B·Richard LonsdaleAdrian J Mulholland

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Citations

Oct 29, 2013·Archives of Biochemistry and Biophysics·Daniel RostonAmnon Kohen
Dec 10, 2013·Trends in Biochemical Sciences·Mikael EliasDan S Tawfik
Oct 5, 2012·Journal of the American Chemical Society·Zhen WangAmnon Kohen
Sep 26, 2013·Proceedings of the National Academy of Sciences of the United States of America·Louis Y P LukRudolf K Allemann
Dec 4, 2012·International Journal of Molecular Sciences·Alexandre BarrozoShina Caroline Lynn Kamerlin
Jan 5, 2014·International Journal of Molecular Sciences·Rami GheribJames W Gauld
Jun 12, 2013·Annual Review of Biochemistry·Judith P Klinman, Amnon Kohen
Jul 2, 2014·Proceedings of the National Academy of Sciences of the United States of America·Carlo CamilloniMichele Vendruscolo
Feb 18, 2016·Proceedings of the National Academy of Sciences of the United States of America·Adrian J Mulholland
Nov 28, 2014·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Krutika Bavishi, Nikos S Hatzakis
May 16, 2013·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Daniel RostonAmnon Kohen
Jan 28, 2016·Biochemistry·Kevin FrancisAmnon Kohen
Jan 28, 2016·Journal of Chemical Information and Modeling·Takashi Kamachi, Kazunari Yoshizawa
Jun 17, 2015·Proceedings of the National Academy of Sciences of the United States of America·Jianyu ZhangJudith P Klinman
Feb 18, 2016·Biochemistry·Vickery L ArcusLouis A Schipper
Oct 10, 2015·The Journal of Chemical Physics·Kirill Zinovjev, Iñaki Tuñón
Apr 12, 2016·Chemical Research in Toxicology·Richard LonsdaleAdrian J Mulholland
May 24, 2012·Biochemical Society Transactions·David R GlowackiAdrian J Mulholland
May 18, 2016·ACS Catalysis·Priyanka SinghAmnon Kohen
Jan 1, 2012·Computational and Structural Biotechnology Journal·Rajni VermaDanilo Roccatano
Apr 27, 2016·Proceedings of the National Academy of Sciences of the United States of America·Rong YeGabor A Somorjai
Jan 8, 2015·Journal of the American Chemical Society·Xianwen MaoT Alan Hatton
May 18, 2016·The Journal of Chemical Physics·Arieh Warshel, Ram Prasad Bora
Jun 28, 2016·Journal of the American Chemical Society·Tanja SchirmeisterBernd Engels
Oct 31, 2012·Journal of the American Chemical Society·Miguel A F de SouzaRicardo L Longo
Oct 19, 2016·Nature Chemical Biology·Eleanor CampbellColin J Jackson
Sep 28, 2016·Journal of the American Chemical Society·James E LongbothamSam Hay
Jan 26, 2017·The Journal of Physical Chemistry. B·Seogjoo Jang, Changbong Hyeon
Feb 14, 2017·Journal of Chemical Theory and Computation·Katarzyna ŚwiderekVicent Moliner
Jan 5, 2017·Chemistry : a European Journal·Aleksandra Maršavelski, Robert Vianello
Feb 7, 2017·Progress in Biophysics and Molecular Biology·Qinyi Zhao
Apr 10, 2015·Physical Chemistry Chemical Physics : PCCP·Louis Y P LukRudolf K Allemann
Apr 4, 2015·Physical Chemistry Chemical Physics : PCCP·Linus O JohannissenNigel S Scrutton
Apr 15, 2015·Physical Chemistry Chemical Physics : PCCP·Katarzyna SwiderekVicent Moliner

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