Molecules ◽  
2020 ◽  
Vol 25 (19) ◽  
pp. 4409
Author(s):  
Carlo Gatti ◽  
Alessandro Dessì ◽  
Roberto Dallocchio ◽  
Victor Mamane ◽  
Sergio Cossu ◽  
...  

Positive electrostatic potential (V) values are often associated with σ- and π-holes, regions of lower electron density which can interact with electron-rich sites to form noncovalent interactions. Factors impacting σ- and π-holes may thus be monitored in terms of the shape and values of the resulting V. Further precious insights into such factors are obtained through a rigorous decomposition of the V values in atomic or atomic group contributions, a task here achieved by extending the Bader–Gatti source function (SF) for the electron density to V. In this article, this general methodology is applied to a series of 4,4′-bipyridine derivatives containing atoms from Groups VI (S, Se) and VII (Cl, Br), and the pentafluorophenyl group acting as a π-hole. As these molecules are characterized by a certain degree of conformational freedom due to the possibility of rotation around the two C–Ch bonds, from two to four conformational motifs could be identified for each structure through conformational search. On this basis, the impact of chemical and conformational features on σ- and π-hole regions could be systematically evaluated by computing the V values on electron density isosurfaces (VS) and by comparing and dissecting in atomic/atomic group contributions the VS maxima (VS,max) values calculated for different molecular patterns. The results of this study confirm that both chemical and conformational features may seriously impact σ- and π-hole regions and provide a clear analysis and a rationale of why and how this influence is realized. Hence, the proposed methodology might offer precious clues for designing changes in the σ- and π-hole regions, aimed at affecting their potential involvement in noncovalent interactions in a desired way.


1990 ◽  
Vol 12 (6) ◽  
pp. 765-769 ◽  
Author(s):  
K. C. Mundim ◽  
M. Giambiagi ◽  
M. Segre de Giambiagi
Keyword(s):  

1996 ◽  
Vol 161 (1-4) ◽  
pp. 86-89 ◽  
Author(s):  
H.-J. Lugauer ◽  
A. Waag ◽  
L. Worschech ◽  
W. Ossau ◽  
G. Landwehr
Keyword(s):  
Group V ◽  
Wide Gap ◽  

CrystEngComm ◽  
2019 ◽  
Vol 21 (7) ◽  
pp. 1193-1199 ◽  
Author(s):  
Mikhail A. Zykin ◽  
Artem A. Eliseev ◽  
Mariam A. Pogosova ◽  
Lev A. Trusov ◽  
Walter Schnelle ◽  
...  

The atomic group O–Co–O persists in the apatite channel and retains a high energy barrier for magnetization reversal.


2018 ◽  
Vol 74 (7) ◽  
pp. 621-631 ◽  
Author(s):  
Pavel V. Afonine ◽  
Paul D. Adams ◽  
Alexandre Urzhumtsev

TLS modelling was developed by Schomaker and Trueblood to describe atomic displacement parameters through concerted (rigid-body) harmonic motions of an atomic group [Schomaker & Trueblood (1968), Acta Cryst. B24, 63–76]. The results of a TLS refinement are T, L and S matrices that provide individual anisotropic atomic displacement parameters (ADPs) for all atoms belonging to the group. These ADPs can be calculated analytically using a formula that relates the elements of the TLS matrices to atomic parameters. Alternatively, ADPs can be obtained numerically from the parameters of concerted atomic motions corresponding to the TLS matrices. Both procedures are expected to produce the same ADP values and therefore can be used to assess the results of TLS refinement. Here, the implementation of this approach in PHENIX is described and several illustrations, including the use of all models from the PDB that have been subjected to TLS refinement, are provided.


1940 ◽  
Vol 5a (2) ◽  
pp. 187-196 ◽  
Author(s):  
H. L. A. Tarr

The substrate-specificity of a newly described enzyme common to six bacterial species, comprising five different genera, isolated from such widely divergent sources as decomposing fish, well-water and surface taint butter, was investigated. Of the various substrates studied only trialkylamine oxides having the general structure R3 ≡≡ N = 0 were activated with subsequent reduction, the corresponding volatile base being formed in each case. Betaine, choline, acetylcholine, ergothioneine and stachydrine containing an atomic group similar to the above were not activated. The designation "triamineoxidease" is proposed for this enzyme.


1991 ◽  
Vol 9 (3) ◽  
pp. 272-314 ◽  
Author(s):  
Kenneth Birman ◽  
André Schiper ◽  
Pat Stephenson
Keyword(s):  

1996 ◽  
Vol 118 (10) ◽  
pp. 2523-2524 ◽  
Author(s):  
Hongjian Liu ◽  
Li-Ping Yap ◽  
Karin Musier-Forsyth
Keyword(s):  

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