Literature DB >> 29265384

Is there computational support for an unprotonated carbon in the E4 state of nitrogenase?

Per E M Siegbahn1.   

Abstract

In the key enzyme for nitrogen fixation in nature, nitrogenase, the active site has a metal cluster with seven irons and one molybdenum bound by bridging sulfurs. Surprisingly, there is also a carbon in the center of the cluster, with a role that is not known. A mechanism has been suggested experimentally, where two hydrides leave as a hydrogen molecule in the critical E4 state. A structure with two hydrides, two protonated sulfurs and an unprotonated carbon has been suggested for this state. Rather recently, DFT calculations supported the experimental mechanism but found an active state where the central carbon is protonated all the way to CH3 . Even more recently, another DFT study was made that instead supported the experimentally suggested structure. To sort out the origin of these quite different computational results, additional calculations have here been performed using different DFT functionals. The conclusion from these calculations is very clear and shows no computational support for an unprotonated carbon in E4 .
© 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.

Entities:  

Keywords:  central carbon; density functional theory; enzyme mechanism; intermediates; nitrogen fixation

Mesh:

Substances:

Year:  2017        PMID: 29265384     DOI: 10.1002/jcc.25145

Source DB:  PubMed          Journal:  J Comput Chem        ISSN: 0192-8651            Impact factor:   3.376


  9 in total

Review 1.  Reduction of Substrates by Nitrogenases.

Authors:  Lance C Seefeldt; Zhi-Yong Yang; Dmitriy A Lukoyanov; Derek F Harris; Dennis R Dean; Simone Raugei; Brian M Hoffman
Journal:  Chem Rev       Date:  2020-03-16       Impact factor: 60.622

2.  High-Resolution ENDOR Spectroscopy Combined with Quantum Chemical Calculations Reveals the Structure of Nitrogenase Janus Intermediate E4(4H).

Authors:  Veronika Hoeke; Laura Tociu; David A Case; Lance C Seefeldt; Simone Raugei; Brian M Hoffman
Journal:  J Am Chem Soc       Date:  2019-07-16       Impact factor: 15.419

3.  Critical computational analysis illuminates the reductive-elimination mechanism that activates nitrogenase for N2 reduction.

Authors:  Simone Raugei; Lance C Seefeldt; Brian M Hoffman
Journal:  Proc Natl Acad Sci U S A       Date:  2018-10-24       Impact factor: 11.205

4.  What Is the Structure of the E4 Intermediate in Nitrogenase?

Authors:  Lili Cao; Ulf Ryde
Journal:  J Chem Theory Comput       Date:  2020-02-14       Impact factor: 6.006

5.  Thermodynamically Favourable States in the Reaction of Nitrogenase without Dissociation of any Sulfide Ligand.

Authors:  Hao Jiang; Ulf Ryde
Journal:  Chemistry       Date:  2022-02-02       Impact factor: 5.020

6.  A model for dinitrogen binding in the E4 state of nitrogenase.

Authors:  Albert Th Thorhallsson; Bardi Benediktsson; Ragnar Bjornsson
Journal:  Chem Sci       Date:  2019-10-15       Impact factor: 9.825

7.  N2H2 binding to the nitrogenase FeMo cluster studied by QM/MM methods.

Authors:  Lili Cao; Ulf Ryde
Journal:  J Biol Inorg Chem       Date:  2020-04-07       Impact factor: 3.358

8.  The active E4 structure of nitrogenase studied with different DFT functionals.

Authors:  Wen-Jie Wei; Per E M Siegbahn
Journal:  J Comput Chem       Date:  2020-10-14       Impact factor: 3.376

9.  The influences of carbon donor ligands on biomimetic multi-iron complexes for N2 reduction.

Authors:  Alexandra L Nagelski; Majed S Fataftah; Melissa M Bollmeyer; Sean F McWilliams; Samantha N MacMillan; Brandon Q Mercado; Kyle M Lancaster; Patrick L Holland
Journal:  Chem Sci       Date:  2020-08-06       Impact factor: 9.825

  9 in total

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