Literature DB >> 17547444

Simulation of heme using DFT + U: a step toward accurate spin-state energetics.

Damian A Scherlis1, Matteo Cococcioni, Patrick Sit, Nicola Marzari.   

Abstract

We investigate the DFT + U approach as a viable solution to describe the low-lying states of ligated and unligated iron heme complexes. Besides their central role in organometallic chemistry, these compounds represent a paradigmatic case where LDA, GGA, and common hybrid functionals fail to reproduce the experimental magnetic splittings. In particular, the imidazole pentacoordinated heme is incorrectly described as a triplet by all usual DFT flavors. In this study, we show that a U parameter close to 4 eV leads to spin transitions and molecular geometries in quantitative agreement with experiments and that DFT + U represents an appealing tool in the description of iron porphyrin complexes, at a much reduced cost compared to correlated quantum-chemistry methods. The possibility of obtaining the U parameter from first principles is explored through a self-consistent linear-response formulation. We find that this approach, which proved to be successful in other iron systems, produces in this case some overestimation with respect to the optimal values of U.

Entities:  

Mesh:

Substances:

Year:  2007        PMID: 17547444     DOI: 10.1021/jp070549l

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  14 in total

1.  A quantitative model for oxygen uptake and release in a family of hemeproteins.

Authors:  Juan P Bustamante; María E Szretter; Mariela Sued; Marcelo A Martí; Darío A Estrin; Leonardo Boechi
Journal:  Bioinformatics       Date:  2016-02-15       Impact factor: 6.937

2.  A GGA+U approach to effective electronic correlations in thiolate-ligated iron-oxo (IV) porphyrin.

Authors:  Justin E Elenewski; John C Hackett
Journal:  J Chem Phys       Date:  2012-09-28       Impact factor: 3.488

3.  Spectroscopic identification of reactive porphyrin motions.

Authors:  Alexander Barabanschikov; Alexander Demidov; Minoru Kubo; Paul M Champion; J Timothy Sage; Jiyong Zhao; Wolfgang Sturhahn; E Ercan Alp
Journal:  J Chem Phys       Date:  2011-07-07       Impact factor: 3.488

4.  Renormalization of myoglobin-ligand binding energetics by quantum many-body effects.

Authors:  Cédric Weber; Daniel J Cole; David D O'Regan; Mike C Payne
Journal:  Proc Natl Acad Sci U S A       Date:  2014-04-09       Impact factor: 11.205

5.  FeP(Im)-AB Bonding Energies Evaluated with A Large Number of Density Functionals (P = porphine, Im = imidazole, AB = CO, NO, and O(2)).

Authors:  Meng-Sheng Liao; Ming-Ju Huang; John D Watts
Journal:  Mol Phys       Date:  2011-08-20       Impact factor: 1.962

6.  Iron porphyrins with different imidazole ligands. A theoretical comparative study.

Authors:  Meng-Sheng Liao; Ming-Ju Huang; John D Watts
Journal:  J Phys Chem A       Date:  2010-09-09       Impact factor: 2.781

7.  Cytochrome P450 compound I in the plane wave pseudopotential framework: GGA electronic and geometric structure of thiolate-ligated iron(IV)-oxo porphyrin.

Authors:  Justin E Elenewski; John C Hackett
Journal:  J Comput Chem       Date:  2013-05-14       Impact factor: 3.376

8.  The secondary coordination sphere and axial ligand effects on oxygen reduction reaction by iron porphyrins: a DFT computational study.

Authors:  Takehiro Ohta; Perumandla Nagaraju; Jin-Gang Liu; Takashi Ogura; Yoshinori Naruta
Journal:  J Biol Inorg Chem       Date:  2016-08-09       Impact factor: 3.358

9.  Effects of local protein environment on the binding of diatomic molecules to heme in myoglobins. DFT and dispersion-corrected DFT studies.

Authors:  Meng-Sheng Liao; Ming-Ju Huang; John D Watts
Journal:  J Mol Model       Date:  2013-05-10       Impact factor: 1.810

10.  Tuning the catalytic activity of Ag(110)-supported Fe phthalocyanine in the oxygen reduction reaction.

Authors:  F Sedona; M Di Marino; D Forrer; A Vittadini; M Casarin; A Cossaro; L Floreano; A Verdini; M Sambi
Journal:  Nat Mater       Date:  2012-10-21       Impact factor: 43.841

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.