Modeling the mechanisms of biological GTP hydrolysis

Archives of Biochemistry and Biophysics
Alexandra T P CarvalhoShina C L Kamerlin

Abstract

Enzymes that hydrolyze GTP are currently in the spotlight, due to their molecular switch mechanism that controls many cellular processes. One of the best-known classes of these enzymes are small GTPases such as members of the Ras superfamily, which catalyze the hydrolysis of the γ-phosphate bond in GTP. In addition, the availability of an increasing number of crystal structures of translational GTPases such as EF-Tu and EF-G have made it possible to probe the molecular details of GTP hydrolysis on the ribosome. However, despite a wealth of biochemical, structural and computational data, the way in which GTP hydrolysis is activated and regulated is still a controversial topic and well-designed simulations can play an important role in resolving and rationalizing the experimental data. In this review, we discuss the contributions of computational biology to our understanding of GTP hydrolysis on the ribosome and in small GTPases.

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Citations

Dec 15, 2015·The Journal of Physical Chemistry. B·Carles Acosta-SilvaAntoni Oliva
Jun 10, 2015·Proceedings of the National Academy of Sciences of the United States of America·Sandro F F PereiraJonathan Dworkin
Sep 17, 2015·The Journal of Physical Chemistry. B·Maria G KhrenovaAlexander V Nemukhin
Jul 29, 2015·Archives of Biochemistry and Biophysics·V Moliner
Apr 5, 2016·The Journal of Physical Chemistry. B·Maria G KhrenovaAlexander V Nemukhin
Dec 3, 2016·Proceedings of the National Academy of Sciences of the United States of America·Daniel MannCarsten Kötting
Sep 12, 2018·Physical Chemistry Chemical Physics : PCCP·Bella L GrigorenkoAlexander V Nemukhin
May 2, 2019·Organic & Biomolecular Chemistry·Bella L GrigorenkoAlexander V Nemukhin
Apr 30, 2017·Chemical Science·Ravi TripathiDominik Marx
Mar 15, 2016·Biopolymers·Cristina Maracci, Marina V Rodnina
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Mar 1, 2017·Biological Chemistry·Klaus GerwertCarsten Kötting
Aug 7, 2017·F1000Research·Diana ZalaMathieu Boissan
Feb 8, 2018·Chemical Communications : Chem Comm·Dušan PetrovićShina Caroline Lynn Kamerlin
Apr 8, 2021·The Journal of Membrane Biology·Cesar A LópezS Gnanakaran
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Jan 4, 2018·Chemical Reviews·Jiří ŠponerMichal Otyepka
Oct 19, 2017·Biochemistry·Jonathan LaiZaida Luthey-Schulten
Mar 17, 2020·ACS Omega·Ana Rita CalixtoShina Caroline Lynn Kamerlin
Nov 10, 2018·ACS Central Science·Marten PrießLars V Schäfer
Jun 15, 2019·Journal of the American Chemical Society·Ana R CalixtoShina C L Kamerlin

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