Literature DB >> 11326112

Density-optimized radial exponents for X-ray charge-density refinement from ab initio crystal calculations.

A Volkov1, Y A Abramov, P Coppens.   

Abstract

Structure factors based on periodic density-functional (DFT) calculations on 25 molecular crystals have been used to evaluate trends in refined values of the kappa and kappa' expansion-contraction parameters of the Hansen-Coppens multipole formalism. As found previously and expected physically, the spherical-valence-shell kappa parameters are closely related to the net atomic charges, negative atoms being expanded and vice versa. kappa' parameters, which scale the radial dependence of the non-spherical deformation functions, are remarkably consistent for particular bonding environments. Systematic trends are observed for both carbon and oxygen, but the values obtained for nitrogen show a larger variation. Average values for oxygen and carbon in different bonding environments are tabulated and can be used whenever refinement of experimental data is affected by lack of uniqueness of the charge-density parameter set. Values for nitrogen must be more finely tuned to the specific bonding environment. The relation between atomic charge and kappa offers the possibility of introducing a constraint in the charge-density refinement of very large molecules, for which reduction of the size of the parameter set may be essential.

Entities:  

Year:  2001        PMID: 11326112     DOI: 10.1107/s0108767300018547

Source DB:  PubMed          Journal:  Acta Crystallogr A        ISSN: 0108-7673            Impact factor:   2.290


  8 in total

1.  Combined quantum mechanics/molecular mechanics (QM/MM) methods to understand the charge density distribution of estrogens in the active site of estrogen receptors.

Authors:  C Kalaiarasi; S Manjula; P Kumaradhas
Journal:  RSC Adv       Date:  2019-12-10       Impact factor: 4.036

2.  Application of charge density methods to a protein model compound: calculation of Coulombic intermolecular interaction energies from the experimental charge density.

Authors:  Xue Li; Guang Wu; Yuriy A Abramov; Anatoliy V Volkov; Philip Coppens
Journal:  Proc Natl Acad Sci U S A       Date:  2002-09-09       Impact factor: 11.205

3.  On the error in the nucleus-centered multipolar expansion of molecular electron density and its topology: A direct-space computational study.

Authors:  J Robert Michael; Tibor Koritsanszky
Journal:  J Chem Phys       Date:  2017-05-28       Impact factor: 3.488

Review 4.  Modelling the experimental electron density: only the synergy of various approaches can tackle the new challenges.

Authors:  Piero Macchi; Jean-Michel Gillet; Francis Taulelle; Javier Campo; Nicolas Claiser; Claude Lecomte
Journal:  IUCrJ       Date:  2015-05-14       Impact factor: 4.769

5.  Multipolar Atom Types from Theory and Statistical Clustering (MATTS) Data Bank: Restructurization and Extension of UBDB.

Authors:  Kunal Kumar Jha; Barbara Gruza; Aleksandra Sypko; Prashant Kumar; Michał Leszek Chodkiewicz; Paulina Maria Dominiak
Journal:  J Chem Inf Model       Date:  2022-08-09       Impact factor: 6.162

6.  Topological properties of hydrogen bonds and covalent bonds from charge densities obtained by the maximum entropy method (MEM).

Authors:  Jeanette Netzel; Sander van Smaalen
Journal:  Acta Crystallogr B       Date:  2009-08-28

7.  Charge density view on bicalutamide molecular interactions in the monoclinic polymorph and androgen receptor binding pocket.

Authors:  Alexander A Korlyukov; Maura Malinska; Anna V Vologzhanina; Mikhail S Goizman; Damian Trzybinski; Krzysztof Wozniak
Journal:  IUCrJ       Date:  2020-01-01       Impact factor: 4.769

8.  Tracing electron density changes in langbeinite under pressure.

Authors:  Roman Gajda; Dongzhou Zhang; Jan Parafiniuk; Przemysław Dera; Krzysztof Woźniak
Journal:  IUCrJ       Date:  2021-12-23       Impact factor: 4.769

  8 in total

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