Literature DB >> 16983168

Anisotropic displacement parameters for H atoms using an ONIOM approach.

Andrew E Whitten1, Mark A Spackman.   

Abstract

X-ray diffraction data cannot provide anisotropic displacement parameters (ADPs) for H atoms, a major outstanding problem in charge-density analysis of molecular crystals. Although neutron diffraction experiments are the preferred source of this information, for a variety of reasons they are possible only for a minority of materials of interest. To date, approximate procedures combine rigid-body analysis of the molecular heavy-atom skeleton, based on ADPs derived from the X-ray data, with estimates of internal motion provided by spectroscopic data, analyses of neutron diffraction data on related compounds, or ab initio calculations on isolated molecules. Building on these efforts, an improved methodology is presented, incorporating information on internal vibrational motion from ab initio cluster calculations using the ONIOM approach implemented in GAUSSIAN03. The method is tested by comparing model H-atom ADPs with reference values, largely from neutron diffraction experiments, for a variety of molecular crystals: benzene, 1-methyluracil, alpha-glycine, xylitol and 2-methyl-4-nitroaniline. The results are impressive and, as the method is based on widely available software, and is in principle widely applicable, it offers considerable promise in future charge-density studies of molecular crystals.

Entities:  

Year:  2006        PMID: 16983168     DOI: 10.1107/S0108768106020787

Source DB:  PubMed          Journal:  Acta Crystallogr B        ISSN: 0108-7681


  12 in total

1.  Influence of modelling disorder on Hirshfeld atom refinement results of an organo-gold(I) compound.

Authors:  Sylwia Pawlędzio; Maura Malinska; Florian Kleemiss; Simon Grabowsky; Krzysztof Woźniak
Journal:  IUCrJ       Date:  2022-06-11       Impact factor: 5.588

2.  Experimental Electron Density and Neutron Diffraction Studies on the Polymorphs of Sulfathiazole.

Authors:  Ioana Sovago; Matthias J Gutmann; J Grant Hill; Hans Martin Senn; Lynne H Thomas; Chick C Wilson; Louis J Farrugia
Journal:  Cryst Growth Des       Date:  2014-01-17       Impact factor: 4.076

3.  On the temperature dependence of H-U(iso) in the riding hydrogen model.

Authors:  Jens Lübben; Christian Volkmann; Simon Grabowsky; Alison Edwards; Wolfgang Morgenroth; Francesca P A Fabbiani; George M Sheldrick; Birger Dittrich
Journal:  Acta Crystallogr A Found Adv       Date:  2014-05-28       Impact factor: 2.290

4.  Yes, one can obtain better quality structures from routine X-ray data collection.

Authors:  W Fabiola Sanjuan-Szklarz; Anna A Hoser; Matthias Gutmann; Anders Østergaard Madsen; Krzysztof Woźniak
Journal:  IUCrJ       Date:  2016-01-01       Impact factor: 4.769

5.  Quantum crystallographic charge density of urea.

Authors:  Michael E Wall
Journal:  IUCrJ       Date:  2016-06-08       Impact factor: 4.769

6.  Accurate Bond Lengths to Hydrogen Atoms from Single-Crystal X-ray Diffraction by Including Estimated Hydrogen ADPs and Comparison to Neutron and QM/MM Benchmarks.

Authors:  Birger Dittrich; Jens Lübben; Stefan Mebs; Armin Wagner; Peter Luger; Ralf Flaig
Journal:  Chemistry       Date:  2017-03-15       Impact factor: 5.236

7.  Refinement of organic crystal structures with multipolar electron scattering factors.

Authors:  Barbara Gruza; Michał Leszek Chodkiewicz; Joanna Krzeszczakowska; Paulina Maria Dominiak
Journal:  Acta Crystallogr A Found Adv       Date:  2020-01-01       Impact factor: 2.290

8.  Estimating temperature-dependent anisotropic hydrogen displacements with the invariom database and a new segmented rigid-body analysis program.

Authors:  Jens Lübben; Luc J Bourhis; Birger Dittrich
Journal:  J Appl Crystallogr       Date:  2015-11-10       Impact factor: 3.304

Review 9.  Contributions of charge-density research to medicinal chemistry.

Authors:  Birger Dittrich; Chérif F Matta
Journal:  IUCrJ       Date:  2014-09-23       Impact factor: 4.769

10.  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

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