scholarly journals Chirality-induced spin polarization places symmetry constraints on biomolecular interactions

2017 ◽  
Vol 114 (10) ◽  
pp. 2474-2478 ◽  
Author(s):  
Anup Kumar ◽  
Eyal Capua ◽  
Manoj K. Kesharwani ◽  
Jan M. L. Martin ◽  
Einat Sitbon ◽  
...  

Noncovalent interactions between molecules are key for many biological processes. Necessarily, when molecules interact, the electronic charge in each of them is redistributed. Here, we show experimentally that, in chiral molecules, charge redistribution is accompanied by spin polarization. We describe how this spin polarization adds an enantioselective term to the forces, so that homochiral interaction energies differ from heterochiral ones. The spin polarization was measured by using a modified Hall effect device. An electric field that is applied along the molecules causes charge redistribution, and for chiral molecules, a Hall voltage is measured that indicates the spin polarization. Based on this observation, we conjecture that the spin polarization enforces symmetry constraints on the biorecognition process between two chiral molecules, and we describe how these constraints can lead to selectivity in the interaction between enantiomers based on their handedness. Model quantum chemistry calculations that rigorously enforce these constraints show that the interaction energy for methyl groups on homochiral molecules differs significantly from that found for heterochiral molecules at van der Waals contact and shorter (i.e., ∼0.5 kcal/mol at 0.26 nm).

Catalysts ◽  
2021 ◽  
Vol 11 (4) ◽  
pp. 471
Author(s):  
Eleonora Tosi ◽  
Renata Marcia de Figueiredo ◽  
Jean-Marc Campagne

The crucial role played by compounds bearing amide functions, not only in biological processes but also in several fields of chemistry, life polymers and material sciences, has brought about many significant discoveries and innovative approaches for their chemical synthesis. Indeed, a plethora of strategies has been developed to reach such moieties. Amides within chiral molecules are often associated with biological activity especially in life sciences and medicinal chemistry. In most of these cases, their synthesis requires extensive rethinking methodologies. In the very last years (2019–2020), enantioselective C-H functionalization has appeared as a straightforward alternative to reach chiral amides. Therein, an overview on these transformations within this timeframe is going to be given.


2018 ◽  
Vol 117 (17) ◽  
pp. 2260-2266 ◽  
Author(s):  
Jane S. Murray ◽  
Dariush H. Zadeh ◽  
Pat Lane ◽  
Peter Politzer

2021 ◽  
Author(s):  
Nisha Mehta ◽  
Thomas Fellowes ◽  
JONATHAN WHITE ◽  
Lars Goerigk

<div> <div> <div> <p>We present the CHAL336 benchmark set—the most comprehensive database for the assessment of chalcogen-bonding (CB) interactions. After careful selection of suitable systems and identification of three high-level reference methods, the set comprises 336 dimers each consisting of up to 49 atoms and covers both σ- and π-hole interactions across four categories: chalcogen-chalcogen, chalcogen-π, chalcogen-halogen, and chalcogen-nitrogen interactions. In a subsequent study of DFT methods, we re- emphasize the need for using proper London-dispersion corrections when treating noncovalent interactions. We also point out that the deterioration of results and systematic overestimation of interaction energies for some dispersion-corrected DFT methods does not hint at problems with the chosen dispersion correction, but is a consequence of large density-driven errors. We conclude this work by performing the most detailed DFT benchmark study for CB interactions to date. We assess 98 variations of dispersion- corrected and -uncorrected DFT methods, and carry out a detailed analysis of 72 of them. Double-hybrid functionals are the most reliable approaches for CB interactions, and they should be used whenever computationally feasible. The best three double hybrids are SOS0-PBE0-2-D3(BJ), revDSD-PBEP86-D3(BJ), and B2NCPLYP-D3(BJ). The best hybrids in this study are ωB97M-V, PW6B95-D3(0), and PW6B95-D3(BJ). We do not recommend using any lower-rung DFT methods nor the popular B3LYP and MP2 approaches, which have been used to describe CB interactions in the past. We hope to inspire a change in computational protocols surrounding CB interactions that leads away from the commonly used, popular methods to the more robust and accurate ones recommended herein. We would also like to encourage method developers to use our set for the investigation and reduction of density-driven errors in new density functional approximations. </p> </div> </div> </div>


2012 ◽  
Vol 1396 ◽  
Author(s):  
Tomotsugu Ishikura ◽  
Takahiro Hiraki ◽  
Takashi Matsuda ◽  
Joungeob Lee ◽  
Kanji Yoh

AbstractWe have investigated an InAs channel Hall-bar structure with ferromagnetic spin injector in one of the current terminals. After magnetizing the Fe electrode, spin polarized electrons are injected through the edge of the isolation mesa structure and the anomalous Hall voltage is observed, when electrons are injected from the ferromagnetic terminal. However, when electrons are injected from the non-magnetic metal (Ti/Au) of opposite terminal, the Hall voltage disappeared to the variation error level due to the fabrication imperfections. This result suggests the possibility that out-of-plane spin injection from the channel edge lead to perpendicular nuclear magnetic field. It is presumably caused by nuclear spin polarization in InAs channel near the spin source edge through Overhauser effect. The estimated internal magnetic field was 2000 Gauss.


Molecules ◽  
2021 ◽  
Vol 26 (6) ◽  
pp. 1533
Author(s):  
Jayashree Nagesh

Noncovalent interactions play a pivotal role in regulating protein conformation, stability and dynamics. Among the quantum mechanical (QM) overlap-based noncovalent interactions, n→π* is the best understood with studies ranging from small molecules to β-turns of model proteins such as GB1. However, these investigations do not explore the interplay between multiple overlap interactions in contributing to local structure and stability. In this work, we identify and characterize all noncovalent overlap interactions in the β-turn, an important secondary structural element that facilitates the folding of a polypeptide chain. Invoking a QM framework of natural bond orbitals, we demonstrate the role of several additional interactions such as n→σ* and π→π* that are energetically comparable to or larger than n→π*. We find that these interactions are sensitive to changes in the side chain of the residues in the β-turn of GB1, suggesting that the n→π* may not be the only component in dictating β-turn conformation and stability. Furthermore, a database search of n→σ* and π→π* in the PDB reveals that they are prevalent in most proteins and have significant interaction energies (∼1 kcal/mol). This indicates that all overlap interactions must be taken into account to obtain a comprehensive picture of their contributions to protein structure and energetics. Lastly, based on the extent of QM overlaps and interaction energies, we propose geometric criteria using which these additional interactions can be efficiently tracked in broad database searches.


2021 ◽  
Vol 58 (2) ◽  
pp. 3-10
Author(s):  
A. Usseinov ◽  
Zh. Koishybayeva ◽  
A. Platonenko ◽  
A. Akilbekov ◽  
J. Purans ◽  
...  

Abstract Gallium oxide β-Ga2O3 is an important wide-band gap semiconductor. In this study, we have calculated the formation energy and transition levels of oxygen vacancies in β-Ga2O3 crystal using the B3LYP hybrid exchange-correlation functional within the LCAO-DFT approach. The obtained electronic charge redistribution in perfect Ga2O3 shows notable covalency of the Ga-O bonds. The formation of the neutral oxygen vacancy in β-Ga2O3 leads to the presence of deep donor defects with quite low concentration. This is a clear reason why oxygen vacancies can be hardly responsible for n-type conductivity in β-Ga2O3.


2021 ◽  
Author(s):  
Nisha Mehta ◽  
Thomas Fellowes ◽  
JONATHAN WHITE ◽  
Lars Goerigk

<div> <div> <div> <p>We present the CHAL336 benchmark set—the most comprehensive database for the assessment of chalcogen-bonding (CB) interactions. After careful selection of suitable systems and identification of three high-level reference methods, the set comprises 336 dimers each consisting of up to 49 atoms and covers both σ- and π-hole interactions across four categories: chalcogen-chalcogen, chalcogen-π, chalcogen-halogen, and chalcogen-nitrogen interactions. In a subsequent study of DFT methods, we re- emphasize the need for using proper London-dispersion corrections when treating noncovalent interactions. We also point out that the deterioration of results and systematic overestimation of interaction energies for some dispersion-corrected DFT methods does not hint at problems with the chosen dispersion correction, but is a consequence of large density-driven errors. We conclude this work by performing the most detailed DFT benchmark study for CB interactions to date. We assess 98 variations of dispersion- corrected and -uncorrected DFT methods, and carry out a detailed analysis of 72 of them. Double-hybrid functionals are the most reliable approaches for CB interactions, and they should be used whenever computationally feasible. The best three double hybrids are SOS0-PBE0-2-D3(BJ), revDSD-PBEP86-D3(BJ), and B2NCPLYP-D3(BJ). The best hybrids in this study are ωB97M-V, PW6B95-D3(0), and PW6B95-D3(BJ). We do not recommend using any lower-rung DFT methods nor the popular B3LYP and MP2 approaches, which have been used to describe CB interactions in the past. We hope to inspire a change in computational protocols surrounding CB interactions that leads away from the commonly used, popular methods to the more robust and accurate ones recommended herein. We would also like to encourage method developers to use our set for the investigation and reduction of density-driven errors in new density functional approximations. </p> </div> </div> </div>


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