A 21st century revisionist's view at a turning point in enzymology
- PMID: 19620995
- DOI: 10.1038/nchembio.204
A 21st century revisionist's view at a turning point in enzymology
Erratum in
- Nat Chem Biol. 2009 Sep;5(9):696
Abstract
Despite the fact that the number of publications associated with the keyword 'enzyme' increases every year, the precise origin of enzyme catalysis has remained unresolved. Because of sustained intensive research efforts from an increasing number of laboratories, detailed information regarding the physics, chemistry and kinetics of enzymes is accumulating rapidly. The growing body of data contains many examples of kinetic behavior that are incompatible with a static view of enzyme catalysis. As a result, numerous laboratories are approaching the consensus that protein motion plays an essential role in enzyme catalysis. A model that incorporates nuclear quantum tunneling together with two classes of protein motion--termed conformational sampling (pre-organization) and reorganization--is recommended as a means of understanding the large body of data for enzyme-catalyzed hydrogen transfers. It should also serve as a vehicle for future efforts in the development of potent enzyme inhibitors and the de novo design of all classifications of enzymes.
Similar articles
-
Hybrid schemes based on quantum mechanics/molecular mechanics simulations goals to success, problems, and perspectives.Adv Protein Chem Struct Biol. 2011;85:81-142. doi: 10.1016/B978-0-12-386485-7.00003-X. Adv Protein Chem Struct Biol. 2011. PMID: 21920322 Review.
-
Hydrogen tunneling links protein dynamics to enzyme catalysis.Annu Rev Biochem. 2013;82:471-96. doi: 10.1146/annurev-biochem-051710-133623. Annu Rev Biochem. 2013. PMID: 23746260 Free PMC article. Review.
-
Enzymatic catalysis and transfers in solution. I. Theory and computations, a unified view.J Chem Phys. 2006 Nov 21;125(19):194504. doi: 10.1063/1.2372496. J Chem Phys. 2006. PMID: 17129120 Review.
-
Modelling enzyme reaction mechanisms, specificity and catalysis.Drug Discov Today. 2005 Oct 15;10(20):1393-402. doi: 10.1016/S1359-6446(05)03611-1. Drug Discov Today. 2005. PMID: 16253878 Review.
-
Structural bases of hydrogen tunneling in enzymes: progress and puzzles.Curr Opin Struct Biol. 2004 Dec;14(6):648-55. doi: 10.1016/j.sbi.2004.10.008. Curr Opin Struct Biol. 2004. PMID: 15582387 Review.
Cited by
-
Flexible backbone sampling methods to model and design protein alternative conformations.Methods Enzymol. 2013;523:61-85. doi: 10.1016/B978-0-12-394292-0.00004-7. Methods Enzymol. 2013. PMID: 23422426 Free PMC article.
-
Active site hydrophobic residues impact hydrogen tunneling differently in a thermophilic alcohol dehydrogenase at optimal versus nonoptimal temperatures.Biochemistry. 2012 May 22;51(20):4147-56. doi: 10.1021/bi3001352. Epub 2012 May 8. Biochemistry. 2012. PMID: 22568562 Free PMC article.
-
Temperature dependence of protein motions in a thermophilic dihydrofolate reductase and its relationship to catalytic efficiency.Proc Natl Acad Sci U S A. 2010 Jun 1;107(22):10074-9. doi: 10.1073/pnas.1003678107. Epub 2010 May 13. Proc Natl Acad Sci U S A. 2010. PMID: 20534574 Free PMC article.
-
Resolution and characterization of contributions of select protein and coupled solvent configurational fluctuations to radical rearrangement catalysis in coenzyme B12-dependent ethanolamine ammonia-lyase.Methods Enzymol. 2022;669:229-259. doi: 10.1016/bs.mie.2021.12.017. Epub 2022 Jan 29. Methods Enzymol. 2022. PMID: 35644173 Free PMC article.
-
Tunneling in the Hydrogen-Transfer Reaction from a Vitamin E Analog to an Inclusion Complex of 2,2-Diphenyl-1-picrylhydrazyl Radical with β-Cyclodextrin in an Aqueous Buffer Solution at Ambient Temperature.Antioxidants (Basel). 2021 Dec 8;10(12):1966. doi: 10.3390/antiox10121966. Antioxidants (Basel). 2021. PMID: 34943069 Free PMC article.
References
MeSH terms
Substances
LinkOut - more resources
Full Text Sources
Other Literature Sources
Research Materials