Literature DB >> 27498642

Examinations of the Chemical Step in Enzyme Catalysis.

P Singh1, Z Islam1, A Kohen2.   

Abstract

Advances in computational and experimental methods in enzymology have aided comprehension of enzyme-catalyzed chemical reactions. The main difficulty in comparing computational findings to rate measurements is that the first examines a single energy barrier, while the second frequently reflects a combination of many microscopic barriers. We present here intrinsic kinetic isotope effects and their temperature dependence as a useful experimental probe of a single chemical step in a complex kinetic cascade. Computational predictions are tested by this method for two model enzymes: dihydrofolate reductase and thymidylate synthase. The description highlights the significance of collaboration between experimentalists and theoreticians to develop a better understanding of enzyme-catalyzed chemical conversions.
© 2016 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  Commitment to catalysis; Dihydrofolate reductase; Enzyme catalysis; Kinetic complexity; Kinetic isotope effect; Simulations; Thymidylate synthase

Mesh:

Substances:

Year:  2016        PMID: 27498642      PMCID: PMC4978192          DOI: 10.1016/bs.mie.2016.05.017

Source DB:  PubMed          Journal:  Methods Enzymol        ISSN: 0076-6879            Impact factor:   1.600


  80 in total

Review 1.  Lessons and conclusions from dissecting the mechanism of a bisubstrate enzyme: thymidylate synthase mutagenesis, function, and structure.

Authors:  Janet S Finer-Moore; Daniel V Santi; Robert M Stroud
Journal:  Biochemistry       Date:  2003-01-21       Impact factor: 3.162

2.  Evidence that a 'dynamic knockout' in Escherichia coli dihydrofolate reductase does not affect the chemical step of catalysis.

Authors:  E Joel Loveridge; Enas M Behiry; Jiannan Guo; Rudolf K Allemann
Journal:  Nat Chem       Date:  2012-03-11       Impact factor: 24.427

Review 3.  Relating protein motion to catalysis.

Authors:  Sharon Hammes-Schiffer; Stephen J Benkovic
Journal:  Annu Rev Biochem       Date:  2006       Impact factor: 23.643

4.  Coordinated effects of distal mutations on environmentally coupled tunneling in dihydrofolate reductase.

Authors:  Lin Wang; Nina M Goodey; Stephen J Benkovic; Amnon Kohen
Journal:  Proc Natl Acad Sci U S A       Date:  2006-10-10       Impact factor: 11.205

5.  Chemical achievement and hope for the future.

Authors:  L PAULING
Journal:  Am Sci       Date:  1948-01       Impact factor: 0.548

6.  Cysteine-catalyzed hydrogen isotope exchange at the 5 position of uridylic acid.

Authors:  Y Wataya; H Hayatsu; Y Kawazoe
Journal:  J Am Chem Soc       Date:  1972-12-13       Impact factor: 15.419

7.  The coupling of structural fluctuations to hydride transfer in dihydrofolate reductase.

Authors:  Ian F Thorpe; Charles L Brooks
Journal:  Proteins       Date:  2004-11-15

8.  Mg2+ binds to the surface of thymidylate synthase and affects hydride transfer at the interior active site.

Authors:  Zhen Wang; Paul J Sapienza; Thelma Abeysinghe; Calvin Luzum; Andrew L Lee; Janet S Finer-Moore; Robert M Stroud; Amnon Kohen
Journal:  J Am Chem Soc       Date:  2013-05-10       Impact factor: 15.419

9.  Barrier Crossing in Dihydrofolate Reductasedoes not involve a rate-promoting vibration.

Authors:  Mariangela Dametto; Dimitri Antoniou; Steven D Schwartz
Journal:  Mol Phys       Date:  2012-01-10       Impact factor: 1.962

10.  Extension and limits of the network of coupled motions correlated to hydride transfer in dihydrofolate reductase.

Authors:  Priyanka Singh; Arundhuti Sen; Kevin Francis; Amnon Kohen
Journal:  J Am Chem Soc       Date:  2014-01-31       Impact factor: 15.419

View more
  5 in total

1.  Kinetics of low-temperature transitions and a reaction rate theory from non-equilibrium distributions.

Authors:  Vincenzo Aquilanti; Nayara Dantas Coutinho; Valter Henrique Carvalho-Silva
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2017-04-28       Impact factor: 4.226

2.  Active-Site Glu165 Activation in Triosephosphate Isomerase and Its Deprotonation Kinetics.

Authors:  Hua Deng; R Brian Dyer; Robert Callender
Journal:  J Phys Chem B       Date:  2019-05-02       Impact factor: 2.991

Review 3.  Enzymatic Transition States and Drug Design.

Authors:  Vern L Schramm
Journal:  Chem Rev       Date:  2018-10-18       Impact factor: 60.622

4.  Temperature-Dependent Kinetic Isotope Effects in R67 Dihydrofolate Reductase from Path-Integral Simulations.

Authors:  Anil R Mhashal; Dan Thomas Major
Journal:  J Phys Chem B       Date:  2021-02-01       Impact factor: 2.991

5.  Bacterial versus human thymidylate synthase: Kinetics and functionality.

Authors:  Zahidul Islam; Ilya Gurevic; Timothy S Strutzenberg; Ananda K Ghosh; Tasnia Iqbal; Amnon Kohen
Journal:  PLoS One       Date:  2018-05-01       Impact factor: 3.240

  5 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.