Literature DB >> 18463860

New horizons of adenosinetriphosphate energetics arising from interaction with magnesium cofactor.

Alexander A Tulub1, V E Stefanov.   

Abstract

MD DFT:B3LYP (6-31G** basis set, T = 310 K) method is used to study interactions [singlet (S) and triplet (T) reaction paths] between adenosinetriphosphate, ATP(4-), and [Mg(H(2)O)(6)](2+) in water environment, modeled with 78 water molecules. Computations reveal the appearance of low and high-energy states (stable, quasi-stable, and unstable), assigned to different spin symmetries. At the initial stage of interaction, ATP donates a part of its negative charge to the Mg complex making the Mg slightly charged. As a result, the original octahedral Mg complex loses two (S state) or four (T state) water molecules. Moving along S or T potential energy surfaces (PESs), Mg(H(2)O)(4 )or Mg(H(2)O)(2) display different ways of complexation with ATP. S path favors the formation of a stable chelate with the O1-O2 fragment of ATP triphosphate tail, whereas T path favors producing a single-bonded complex with the O2. The latter, being unstable, undergoes a further conversion into a spin-separated complex, also unstable, and two metastable S complexes, which finally arise in two stable, low-energy and high-energy, chelates. The spin-separated complex experiences rapid decomposition resulting in the production of a highly reactive adenosinemonophosphate ion-radical *AMP, early observed in the CIDNP experiment (Tulub 2006). Biological consequences of the findings are discussed.

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Year:  2008        PMID: 18463860     DOI: 10.1007/s00249-008-0337-5

Source DB:  PubMed          Journal:  Eur Biophys J        ISSN: 0175-7571            Impact factor:   1.733


  10 in total

1.  A chemical kinetics model for microtubule oscillations

Authors: 
Journal:  J Theor Biol       Date:  1999-03-07       Impact factor: 2.691

2.  Molecular dynamics DFT:B3LYP study of guanosinetriphosphate conversion into guanosinemonophosphate upon Mg2+ chelation of alpha and beta phosphate oxygens of the triphosphate tail.

Authors:  Alexander A Tulub
Journal:  Phys Chem Chem Phys       Date:  2006-03-31       Impact factor: 3.676

3.  A classical and ab initio study of the interaction of the myosin triphosphate binding domain with ATP.

Authors:  Todd J Minehardt; Nicola Marzari; Roger Cooke; Edward Pate; Peter A Kollman; Roberto Car
Journal:  Biophys J       Date:  2002-02       Impact factor: 4.033

4.  Mechanism of triphosphate hydrolysis in aqueous solution: QM/MM simulations in water clusters.

Authors:  Bella L Grigorenko; Alexander V Rogov; Alexander V Nemukhin
Journal:  J Phys Chem B       Date:  2006-03-09       Impact factor: 2.991

5.  Activation of tubulin assembly into microtubules upon a series of repeated femtosecond laser impulses.

Authors:  Alexander A Tulub; Vasily E Stefanov
Journal:  J Chem Phys       Date:  2004-12-08       Impact factor: 3.488

6.  A thermodynamic framework for Mg2+ binding to RNA.

Authors:  V K Misra; D E Draper
Journal:  Proc Natl Acad Sci U S A       Date:  2001-10-23       Impact factor: 11.205

7.  Theoretical studies of the ATP hydrolysis mechanism of myosin.

Authors:  N Okimoto; K Yamanaka; J Ueno; M Hata; T Hoshino; M Tsuda
Journal:  Biophys J       Date:  2001-11       Impact factor: 4.033

8.  DFT:B3LYP ab initio molecular dynamics study of the Zundel and Eigen proton complexes, H5O2+ and H9O4+, in the triplet state in gas phase and solution.

Authors:  Alexander A Tulub
Journal:  J Chem Phys       Date:  2004-01-15       Impact factor: 3.488

9.  Comment on "Molecular dynamics DFT:B3LYP study of guanosinetriphosphate conversion into guanosinemonophosphate upon Mg2+ chelation of alpha and beta phosphate oxygens of the triphosphate tail" by Alexander A. Tulub, Phys. Chem. Chem. Phys., 2006, 8, 2187.

Authors:  Jeremy N Harvey; Jolanta Zurek; Ulla Pentikäinen; Adrian J Mulholland
Journal:  Phys Chem Chem Phys       Date:  2006-12-07       Impact factor: 3.676

Review 10.  [Magnesium magnetic isotope effect: a key towards mechanochemistry of phosphorylating enzymes as molecular machines].

Authors:  A L Buchachenko; D A Kuznetsov
Journal:  Mol Biol (Mosk)       Date:  2006 Jan-Feb
  10 in total
  1 in total

1.  Theoretical analysis of spin-dependent synthesis of DNA/RNA.

Authors:  V E Stefanov; A A Tulub
Journal:  Dokl Biochem Biophys       Date:  2011-03-04       Impact factor: 0.788

  1 in total

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