Literature DB >> 31570817

Electronic landscape of the P-cluster of nitrogenase as revealed through many-electron quantum wavefunction simulations.

Zhendong Li1, Sheng Guo2, Qiming Sun2, Garnet Kin-Lic Chan3.   

Abstract

The electronic structure of the nitrogenase metal cofactors is central to nitrogen fixation. However, the P-cluster and FeMo cofactor, each containing eight Fe atoms, have eluded detailed characterization of their electronic properties. We report on the low-energy electronic states of the P-cluster in three oxidation states through exhaustive many-electron wavefunction simulations enabled by new theoretical methods. The energy scales of orbital and spin excitations overlap, yielding a dense spectrum with features that we trace to the underlying atomic states and recouplings. The clusters exist in superpositions of spin configurations with non-classical spin correlations, complicating interpretation of magnetic spectroscopies, whereas the charges are mostly localized from reorganization of the cluster and its surroundings. On oxidation, the opening of the P-cluster substantially increases the density of states, which is intriguing given its proposed role in electron transfer. These results demonstrate that many-electron simulations stand to provide new insights into the electronic structure of the nitrogenase cofactors.

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Year:  2019        PMID: 31570817     DOI: 10.1038/s41557-019-0337-3

Source DB:  PubMed          Journal:  Nat Chem        ISSN: 1755-4330            Impact factor:   24.427


  27 in total

1.  Electron transfer within nitrogenase: evidence for a deficit-spending mechanism.

Authors:  Karamatullah Danyal; Dennis R Dean; Brian M Hoffman; Lance C Seefeldt
Journal:  Biochemistry       Date:  2011-10-11       Impact factor: 3.162

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3.  Energy Transduction in Nitrogenase.

Authors:  Lance C Seefeldt; Brian M Hoffman; John W Peters; Simone Raugei; David N Beratan; Edwin Antony; Dennis R Dean
Journal:  Acc Chem Res       Date:  2018-08-10       Impact factor: 22.384

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Review 5.  Iron-sulfur clusters: nature's modular, multipurpose structures.

Authors:  H Beinert; R H Holm; E Münck
Journal:  Science       Date:  1997-08-01       Impact factor: 47.728

6.  Spectroscopic evidence for changes in the redox state of the nitrogenase P-cluster during turnover.

Authors:  J M Chan; J Christiansen; D R Dean; L C Seefeldt
Journal:  Biochemistry       Date:  1999-05-04       Impact factor: 3.162

7.  X-ray emission spectroscopy evidences a central carbon in the nitrogenase iron-molybdenum cofactor.

Authors:  Kyle M Lancaster; Michael Roemelt; Patrick Ettenhuber; Yilin Hu; Markus W Ribbe; Frank Neese; Uwe Bergmann; Serena DeBeer
Journal:  Science       Date:  2011-11-18       Impact factor: 47.728

8.  Structural characterization of the P1+ intermediate state of the P-cluster of nitrogenase.

Authors:  Stephen M Keable; Oleg A Zadvornyy; Lewis E Johnson; Bojana Ginovska; Andrew J Rasmussen; Karamatullah Danyal; Brian J Eilers; Gregory A Prussia; Axl X LeVan; Simone Raugei; Lance C Seefeldt; John W Peters
Journal:  J Biol Chem       Date:  2018-05-02       Impact factor: 5.157

9.  Low-energy spectrum of iron-sulfur clusters directly from many-particle quantum mechanics.

Authors:  Sandeep Sharma; Kantharuban Sivalingam; Frank Neese; Garnet Kin-Lic Chan
Journal:  Nat Chem       Date:  2014-08-31       Impact factor: 24.427

Review 10.  Mechanism of nitrogen fixation by nitrogenase: the next stage.

Authors:  Brian M Hoffman; Dmitriy Lukoyanov; Zhi-Yong Yang; Dennis R Dean; Lance C Seefeldt
Journal:  Chem Rev       Date:  2014-01-27       Impact factor: 60.622

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  11 in total

1.  Improvement of d-d interactions in density functional tight binding for transition metal ions with a ligand field model: assessment of a DFTB3+U model on nickel coordination compounds.

Authors:  Stepan Stepanovic; Rui Lai; Marcus Elstner; Maja Gruden; Pablo Garcia-Fernandez; Qiang Cui
Journal:  Phys Chem Chem Phys       Date:  2020-12-07       Impact factor: 3.676

2.  Electron Redistribution within the Nitrogenase Active Site FeMo-Cofactor During Reductive Elimination of H2 to Achieve N≡N Triple-Bond Activation.

Authors:  Dmitriy A Lukoyanov; Zhi-Yong Yang; Dennis R Dean; Lance C Seefeldt; Simone Raugei; Brian M Hoffman
Journal:  J Am Chem Soc       Date:  2020-12-16       Impact factor: 15.419

Review 3.  Electron Transfer in Nitrogenase.

Authors:  Hannah L Rutledge; F Akif Tezcan
Journal:  Chem Rev       Date:  2020-01-30       Impact factor: 60.622

4.  Machine learning magnetism classifiers from atomic coordinates.

Authors:  Helena A Merker; Harry Heiberger; Linh Nguyen; Tongtong Liu; Zhantao Chen; Nina Andrejevic; Nathan C Drucker; Ryotaro Okabe; Song Eun Kim; Yao Wang; Tess Smidt; Mingda Li
Journal:  iScience       Date:  2022-09-28

Review 5.  The Spectroscopy of Nitrogenases.

Authors:  Casey Van Stappen; Laure Decamps; George E Cutsail; Ragnar Bjornsson; Justin T Henthorn; James A Birrell; Serena DeBeer
Journal:  Chem Rev       Date:  2020-04-02       Impact factor: 60.622

6.  Analysis of the Geometric and Electronic Structure of Spin-Coupled Iron-Sulfur Dimers with Broken-Symmetry DFT: Implications for FeMoco.

Authors:  Bardi Benediktsson; Ragnar Bjornsson
Journal:  J Chem Theory Comput       Date:  2022-02-15       Impact factor: 6.006

7.  Dissecting Electronic-Structural Transitions in the Nitrogenase MoFe Protein P-Cluster during Reduction.

Authors:  Bryant Chica; Jesse Ruzicka; Lauren M Pellows; Hayden Kallas; Effie Kisgeropoulos; Gregory E Vansuch; David W Mulder; Katherine A Brown; Drazenka Svedruzic; John W Peters; Gordana Dukovic; Lance C Seefeldt; Paul W King
Journal:  J Am Chem Soc       Date:  2022-03-22       Impact factor: 15.419

8.  Statistical analysis of PN clusters in Mo/VFe protein crystals using a bond valence method toward their electronic structures.

Authors:  Chang Yuan; Wan-Ting Jin; Zhao-Hui Zhou
Journal:  RSC Adv       Date:  2022-02-11       Impact factor: 3.361

9.  Carbon Monoxide Binding to the Iron-Molybdenum Cofactor of Nitrogenase: a Detailed Quantum Mechanics/Molecular Mechanics Investigation.

Authors:  Nico Spiller; Ragnar Bjornsson; Serena DeBeer; Frank Neese
Journal:  Inorg Chem       Date:  2021-11-12       Impact factor: 5.165

10.  Toward practical quantum embedding simulation of realistic chemical systems on near-term quantum computers.

Authors:  Weitang Li; Zigeng Huang; Changsu Cao; Yifei Huang; Zhigang Shuai; Xiaoming Sun; Jinzhao Sun; Xiao Yuan; Dingshun Lv
Journal:  Chem Sci       Date:  2022-07-11       Impact factor: 9.969

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