A method to determine 18O kinetic isotope effects in the hydrolysis of nucleotide triphosphates

Xinlin Du, Kurt Ferguson, Robert Gregory, Stephen R. Sprang

Research output: Contribution to journalArticlepeer-review

Abstract

A method to determine 18O kinetic isotope effects (KIEs) in the hydrolysis of GTP that is generally applicable to reactions involving other nucleotide triphosphates is described. Internal competition, where the substrate of the reaction is a mixture of 18O-labeled and unlabeled nucleotides, is employed, and the change in relative abundance of the two species in the course of the reaction is used to calculate KIE. The nucleotide labeled with 18O at sites of mechanistic interest also contains 13C at all carbon positions, whereas the 16O-labeled nucleotide is depleted of 13C. The relative abundance of the labeled and unlabeled substrates or products is reflected in the carbon isotope ratio (13C/12C) in GTP or GDP, which is determined by the use of a liquid chromatography-coupled isotope ratio mass spectrometer (LC-coupled IRMS). The LC is coupled to the IRMS by an Isolink interface. Carbon isotope ratios can be determined with accuracy and precision greater than 0.04% and are consistent over an order of magnitude in sample amount. KIE values for Ras/NF1333-catalyzed hydrolysis of [β18O3,13C]GTP were determined by change in the isotope ratio of GTP or GDP or the ratio of the isotope ratio of GDP to that of GTP. KIE values computed in the three ways agree within 0.1%, although the method using the ratio of isotope ratios of GDP and GTP gives superior precision (<0.1%). A single KIE measurement can be conducted in 25 min with less than 5 μg nucleotide reaction product.

Original languageEnglish
Pages (from-to)213-221
Number of pages9
JournalAnalytical Biochemistry
Volume372
Issue number2
DOIs
StatePublished - Jan 15 2008

Keywords

  • Chemical reaction interface (CRI)
  • Enzyme mechanism
  • GTP hydrolysis
  • GTPase-activating protein (GAP)
  • Isotope ratio mass spectrometer (IRMS)
  • Kinetic isotope effect (KIE)
  • Ras
  • Transition state

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