Theoretical Chemistry Accounts

, Volume 128, Issue 2, pp 191–206

Theoretical studies on model reaction pathways of prostaglandin H2 isomerization to prostaglandin D2/E2

  • Naoto Yamaguchi
  • Tatsuya Naiki
  • Takamitsu Kohzuma
  • Toshikazu Takada
  • Fumihiko Sakata
  • Seiji Mori
Regular Article

DOI: 10.1007/s00214-010-0814-7

Cite this article as:
Yamaguchi, N., Naiki, T., Kohzuma, T. et al. Theor Chem Acc (2011) 128: 191. doi:10.1007/s00214-010-0814-7

Abstract

Model reaction mechanisms in the biosynthesis of prostaglandin D2 (PGD2) and prostaglandin E2 (PGE2) from prostaglandin H2 with PGD2/E2 synthase were examined using the ab initio second-order Møller–Plesset perturbation method and density functional theory. The reaction was modeled similar to the isomerization of 2,3-dioxabicyclo[2.2.1]heptane to 3-hydroxycyclopentanone in the presence of MeS. An explicit solvation of two H2O molecules was also considered, and two probable types of reaction mechanisms were demonstrated. One mechanism starts with proton abstraction from an oxygen-bound carbon at the endoperoxide by a thiolate ion and the other is stepwise and involves attack of a thiolate anion on an oxygen of the endoperoxide group in the first step with protonation of the other oxygen, followed by deprotonation from a carbon-attached oxygen to break an O–S bond to yield PGD2 or PGE2. We also found that the mPW1LYP hybrid method was superior to the B3LYP functional for systems with respect to the state-of-the-art CCSD(T) energetics.

Keywords

Prostaglandin H2Prostaglandin D2Prostaglandin E2Prostaglandin D2 synthaseProstaglandin E2 synthaseModel reaction mechanismsmPW1LYP hybrid functional

Supplementary material

214_2010_814_MOESM1_ESM.doc (225 kb)
Supplementary material 1 (DOC 225 kb)

Copyright information

© Springer-Verlag 2010

Authors and Affiliations

  • Naoto Yamaguchi
    • 1
    • 2
    • 6
  • Tatsuya Naiki
    • 1
    • 3
  • Takamitsu Kohzuma
    • 1
    • 4
  • Toshikazu Takada
    • 5
    • 7
  • Fumihiko Sakata
    • 1
  • Seiji Mori
    • 1
    • 3
    • 4
  1. 1.Graduate School of Science and EngineeringIbaraki UniversityMitoJapan
  2. 2.VALWAY Technology CenterNEC Soft, LtdTokyoJapan
  3. 3.Faculty of ScienceIbaraki UniversityMitoJapan
  4. 4.Frontier Research Center for Applied Atomic SciencesIbaraki UniversityTokaiJapan
  5. 5.NEC CorporationTsukubaJapan
  6. 6.National Security Solutions DivisionNEC CorporationTokyoJapan
  7. 7.Research and Development Program for Next-Generation Computational ResearchRIKENTokyoJapan