Literature DB >> 15365900

A theoretical study of spin states in Ni-S4 complexes and models of the [NiFe] hydrogenase active site.

Maurizio Bruschi1, Luca De Gioia, Giuseppe Zampella, Markus Reiher, Piercarlo Fantucci, Matthias Stein.   

Abstract

We have applied density functional theory, using both pure (BP86) and hybrid (B3LYP and B3LYP*) functionals, to investigate structural parameters and reaction energies for nickel(II)-sulfur coordination compounds, as well as for small cluster models of the Ni-SI and Ni-R redox state of [NiFe] hydrogenases. Results obtained investigating experimentally well-characterized complexes show that BP86 is well suited to describe the structural features of this class of compounds. However, the singlet-triplet energy splitting and even the computed ground state are strongly dependent on the applied functional. Results for the cluster models of [NiFe] hydrogenases lead to the conclusion that in the reduced protein structures characterized by X-ray diffraction a hydride bridges the two metal centres. The energy splitting of the singlet and triplet states in Ni-R and Ni-SI models is calculated to be very small and may be overcome at room temperature to allow a spin crossover. Moreover, the relative stability of the Ni-SI and Ni-R structures adopted in the present investigation is fully compatible with their involvement in the reversible heterolytic cleavage of H(2).

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Year:  2004        PMID: 15365900     DOI: 10.1007/s00775-004-0588-2

Source DB:  PubMed          Journal:  J Biol Inorg Chem        ISSN: 0949-8257            Impact factor:   3.358


  29 in total

1.  Free energy of spin-crossover complexes calculated with density functional methods.

Authors:  H Paulsen; L Duelund; H Winkler; H Toftlund; A X Trautwein
Journal:  Inorg Chem       Date:  2001-04-23       Impact factor: 5.165

Review 2.  Quantum chemical calculations of [NiFe] hydrogenase.

Authors:  Matthias Stein; Wolfgang Lubitz
Journal:  Curr Opin Chem Biol       Date:  2002-04       Impact factor: 8.822

3.  Theoretical study of the Fe(phen)(2)(NCS)(2) spin-crossover complex with reparametrized density functionals.

Authors:  Markus Reiher
Journal:  Inorg Chem       Date:  2002-12-16       Impact factor: 5.165

4.  [Ni]

Authors: 
Journal:  Angew Chem Int Ed Engl       Date:  2000-02       Impact factor: 15.336

5.  Spin forbidden chemical reactions of transition metal compounds. New ideas and new computational challenges.

Authors:  Rinaldo Poli; Jeremy N Harvey
Journal:  Chem Soc Rev       Date:  2003-01       Impact factor: 54.564

6.  Modeling the active sites in metalloenzymes 5. The heterolytic bond cleavage of H(2) in the [NiFe] hydrogenase of desulfovibrio gigas by a nucleophilic addition mechanism.

Authors:  S Niu; M B Hall
Journal:  Inorg Chem       Date:  2001-11-19       Impact factor: 5.165

7.  Description of the ground state wave functions of Ni dithiolenes using sulfur K-edge X-ray absorption spectroscopy.

Authors:  Robert K Szilagyi; Booyong S Lim; Thorsten Glaser; Richard H Holm; Britt Hedman; Keith O Hodgson; Edward I Solomon
Journal:  J Am Chem Soc       Date:  2003-07-30       Impact factor: 15.419

8.  The nickel site in active Desulfovibrio baculatus [NiFeSe] hydrogenase is diamagnetic. Multifield saturation magnetization measurement of the spin state of Ni(II).

Authors:  C P Wang; R Franco; J J Moura; I Moura; E P Day
Journal:  J Biol Chem       Date:  1992-04-15       Impact factor: 5.157

Review 9.  Nickel biochemistry.

Authors:  S W Ragsdale
Journal:  Curr Opin Chem Biol       Date:  1998-04       Impact factor: 8.822

10.  Modelling spin-forbidden reactions: recombination of carbon monoxide with iron tetracarbonyl.

Authors:  Jeremy N Harvey; Massimiliano Aschi
Journal:  Faraday Discuss       Date:  2003       Impact factor: 4.008

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  7 in total

1.  MAPping the chiral inversion and structural transformation of a metal-tripeptide complex having ni-superoxide dismutase activity.

Authors:  Mary E Krause; Amanda M Glass; Timothy A Jackson; Jennifer S Laurence
Journal:  Inorg Chem       Date:  2011-01-31       Impact factor: 5.165

2.  Computational approaches to shed light on molecular mechanisms in biological processes.

Authors:  Giorgio Moro; Laura Bonati; Maurizio Bruschi; Ugo Cosentino; Luca De Gioia; Pier Carlo Fantucci; Alessandro Pandini; Elena Papaleo; Demetrio Pitea; Gloria A A Saracino; Giuseppe Zampella
Journal:  Theor Chem Acc       Date:  2007-05-01       Impact factor: 1.702

3.  Computational study of the electronic structure and magnetic properties of the Ni-C state in [NiFe] hydrogenases including the second coordination sphere.

Authors:  Mario Kampa; Wolfgang Lubitz; Maurice van Gastel; Frank Neese
Journal:  J Biol Inorg Chem       Date:  2012-10-05       Impact factor: 3.358

4.  Density functional study of the catalytic cycle of nickel-iron [NiFe] hydrogenases and the involvement of high-spin nickel(II).

Authors:  Alejandro Pardo; Antonio L De Lacey; Víctor M Fernández; Hua-Jun Fan; Yubo Fan; Michael B Hall
Journal:  J Biol Inorg Chem       Date:  2006-03-02       Impact factor: 3.358

5.  Hydride bridge in [NiFe]-hydrogenase observed by nuclear resonance vibrational spectroscopy.

Authors:  Hideaki Ogata; Tobias Krämer; Hongxin Wang; David Schilter; Vladimir Pelmenschikov; Maurice van Gastel; Frank Neese; Thomas B Rauchfuss; Leland B Gee; Aubrey D Scott; Yoshitaka Yoda; Yoshihito Tanaka; Wolfgang Lubitz; Stephen P Cramer
Journal:  Nat Commun       Date:  2015-08-10       Impact factor: 14.919

6.  QM/MM Investigation of the Role of a Second Coordination Shell Arginine in [NiFe]-Hydrogenases.

Authors:  Andrés M Escorcia; Matthias Stein
Journal:  Front Chem       Date:  2018-05-15       Impact factor: 5.221

7.  Seeing Is Believing: Experimental Spin States from Machine Learning Model Structure Predictions.

Authors:  Michael G Taylor; Tzuhsiung Yang; Sean Lin; Aditya Nandy; Jon Paul Janet; Chenru Duan; Heather J Kulik
Journal:  J Phys Chem A       Date:  2020-04-09       Impact factor: 2.781

  7 in total

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