Literature DB >> 26584116

Extension of the AMBER Force Field for Nitroxide Radicals and Combined QM/MM/PCM Approach to the Accurate Determination of EPR Parameters of DMPO-H in Solution.

Laura Hermosilla1, Giacomo Prampolini2, Paloma Calle1, José Manuel García de la Vega1, Giuseppe Brancato3, Vincenzo Barone3.   

Abstract

A computational strategy that combines both time-dependent and time-independent approaches is exploited to accurately model molecular dynamics and solvent effects on the isotropic hyperfine coupling constants of the DMPO-H nitroxide. Our recent general force field for nitroxides derived from AMBER ff99SB is further extended to systems involving hydrogen atoms in β-positions with respect to NO-moiety. The resulting force-field has been employed in a series of classical molecular dynamics simulations, comparing the computed EPR parameters from selected molecular configurations to the corresponding experimental data in different solvents. The effect of vibrational averaging on the spectroscopic parameters is also taken into account, by second-order vibrational perturbation theory involving semidiagonal third energy derivatives together first and second property derivatives.

Entities:  

Year:  2013        PMID: 26584116      PMCID: PMC4660035          DOI: 10.1021/ct4003256

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  44 in total

Review 1.  Interplay of electronic, environmental, and vibrational effects in determining the hyperfine coupling constants of organic free radicals.

Authors:  Roberto Improta; Vincenzo Barone
Journal:  Chem Rev       Date:  2004-03       Impact factor: 60.622

2.  Structure and spectromagnetic properties of the superoxide radical adduct of DMPO in water: elucidation by theoretical investigations.

Authors:  Céline Houriez; Nicolas Ferré; Didier Siri; Paul Tordo; Michel Masella
Journal:  J Phys Chem B       Date:  2010-09-16       Impact factor: 2.991

3.  Theoretical Study of the X2NO Systems (X = F, Cl, Br, I): Effects of Halogen Substitution on Structural and Spectroscopic Properties.

Authors:  Cristina Puzzarini; Vincenzo Barone
Journal:  J Chem Theory Comput       Date:  2009-09-08       Impact factor: 6.006

4.  Dynamical effects on vibrational and electronic spectra of hydroperoxyl radical water clusters.

Authors:  Srinivasan S Iyengar
Journal:  J Chem Phys       Date:  2005-08-22       Impact factor: 3.488

5.  The properties of ion-water clusters. I. The protonated 21-water cluster.

Authors:  Srinivasan S Iyengar; Matt K Petersen; Tyler J F Day; Christian J Burnham; Virginia E Teige; Gregory A Voth
Journal:  J Chem Phys       Date:  2005-08-22       Impact factor: 3.488

6.  Comparison of multiple Amber force fields and development of improved protein backbone parameters.

Authors:  Viktor Hornak; Robert Abel; Asim Okur; Bentley Strockbine; Adrian Roitberg; Carlos Simmerling
Journal:  Proteins       Date:  2006-11-15

7.  Joyce and Ulysses: integrated and user-friendly tools for the parameterization of intramolecular force fields from quantum mechanical data.

Authors:  Vincenzo Barone; Ivo Cacelli; Nicola De Mitri; Daniele Licari; Susanna Monti; Giacomo Prampolini
Journal:  Phys Chem Chem Phys       Date:  2013-03-21       Impact factor: 3.676

8.  Diarylnitroxide diradicals: low-temperature oxidation of diarylamines to nitroxides.

Authors:  Andrzej Rajca; Matthew Vale; Suchada Rajca
Journal:  J Am Chem Soc       Date:  2008-06-25       Impact factor: 15.419

9.  Prediction of nitroxide hyperfine coupling constants in solution from combined nanosecond scale simulations and quantum computations.

Authors:  Céline Houriez; Nicolas Ferré; Michel Masella; Didier Siri
Journal:  J Chem Phys       Date:  2008-06-28       Impact factor: 3.488

10.  Synthesis of novel aromatic nitroxides as potential DNA intercalators. An EPR spectroscopical and DFT computational study.

Authors:  Mario Beyer; Jörg Fritscher; Emiliano Feresin; Olav Schiemann
Journal:  J Org Chem       Date:  2003-03-21       Impact factor: 4.354

View more
  2 in total

1.  Performance of DFT methods in the calculation of isotropic and dipolar contributions to 14N hyperfine coupling constants of nitroxide radicals.

Authors:  Oleg I Gromov; Sergei V Kuzin; Elena N Golubeva
Journal:  J Mol Model       Date:  2019-03-11       Impact factor: 1.810

2.  Protection against ulcerative colitis and colorectal cancer by evodiamine via anti‑inflammatory effects.

Authors:  Yongfeng Zhang; Yaqin Zhang; Yang Zhao; Wanyue Wu; Weiqi Meng; Yulin Zhou; Ye Qiu; Chenliang Li
Journal:  Mol Med Rep       Date:  2022-04-01       Impact factor: 2.952

  2 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.