Paul W. Betteridge

Bio: Paul W. Betteridge is an academic researcher from University of Oxford. The author has contributed to research in topics: Single crystal. The author has an hindex of 3, co-authored 3 publications receiving 2527 citations.

CRYSTALS version 12: software for guided crystal structure analysis

Abstract: The determination of small-molecule structures from single-crystal X-ray data is being carried out by researchers with little or no crys- tallographic training. At the same time, completely automatic crystal structure analysis can still only be achieved under very favourable conditions. Many of the problems that cause automatic systems to fail could be resolved with suitable chemical insight, and until this is built- in, programs continue to need human guidance. CRYSTALS version 12 contains a modern crystallographic human-interface design, and novel strategies incorporating chemical knowledge and sensible crystallographic guidance into crystal structure analysis software.

Modelling the Chemistry of Zeolites by Computer Graphics

Abstract: The unique structural, adsorptive, and catalytic properties of zeolites are particularly amenable to illustration by computer (especially color) graphics. The siting of cations, the accommodation of guest reactant or product species, as well as the occurrence of various kinds of intergrowths (e.g. twin planes and coincidence boundaries) within these microporous solids can all be effectively portrayed by graphical means in such a manner as to emphasize the shape-selective character of the host zeolite. The dynamics of translational and angular motion of guest species (for example benzene) in a channel of molecular dimensions within a typical zeolitic solid (for example silicalite) can also be probed interactively using appropriate potential functions.

Simulation der Chemie von Zeolithen mit Computer‐Graphik

Abstract: Zeolithe haben einzigartige Strukturen und katalytische Eigenschaften sowie ein herausragendes Adsorptionsvermogen, die mit Computer-Graphik, besonders der Farbgraphik, in eleganter Weise simuliert werden konnen. So lassen sich die Positionen von Kationen und von eingelagerten Edukten und Produkten sowie die verschiedenen Arten von Verwachsungen (intergrowth) in diesen mikroporosen Festkorpern anschaulich darstellen. Dabei ist der formselektierende Charakter der Zeolithe unmittelbar zu erkennen. Auch dynamische Phanomene wie Translation und Rotation von Gastmolekulen, z. B. Benzol, im Kanal eines typischen Zeoliths, z. B. Silicalit, konnen interaktiv mit geeigneten Potentialfunktionen untersucht werden.

WinGX and ORTEP for Windows: an update

Abstract: The WinGX suite provides a complete set of programs for the treatment of small-molecule single-crystal diffraction data, from data reduction and processing, structure solution, model refinement and visualization, and metric analysis of molecular geometry and crystal packing, to final report preparation in the form of a CIF. It includes several well known pieces of software and provides a repository for programs when the original authors no longer wish to, or are unable to, maintain them. It also provides menu items to execute external software, such as the SIR and SHELX suites of programs. The program ORTEP for Windows provides a graphical user interface (GUI) for the classic ORTEP program, which is the original software for the illustration of anisotropic displacement ellipsoids. The GUI code provides input capabilities for a wide variety of file formats, and extra functionality such as geometry calculations and ray-traced outputs. The programs WinGX and ORTEP for Windows have been distributed over the internet for about 15 years, and this article describes some of the more modern features of the programs.

SUPERFLIP– a computer program for the solution of crystal structures by charge flipping in arbitrary dimensions

Abstract: SUPERFLIP is a computer program that can solve crystal structures from diffraction data using the recently developed charge-flipping algorithm. It can solve periodic structures, incommensurately modulated structures and quasicrystals from X-ray and neutron diffraction data. Structure solution from powder diffraction data is supported by combining the charge-flipping algorithm with a histogram-matching procedure. SUPERFLIP is written in Fortran90 and is distributed as a source code and as precompiled binaries. It has been successfully compiled and tested on a variety of operating systems.

PLATON SQUEEZE: a tool for the calculation of the disordered solvent contribution to the calculated structure factors

Abstract: The completion of a crystal structure determination is often hampered by the presence of embedded solvent molecules or ions that are seriously disordered. Their contribution to the calculated structure factors in the least-squares refinement of a crystal structure has to be included in some way. Traditionally, an atomistic solvent disorder model is attempted. Such an approach is generally to be preferred, but it does not always lead to a satisfactory result and may even be impossible in cases where channels in the structure are filled with continuous electron density. This paper documents the SQUEEZE method as an alternative means of addressing the solvent disorder issue. It conveniently interfaces with the 2014 version of the least-squares refinement program SHELXL [Sheldrick (2015). Acta Cryst. C71. In the press] and other refinement programs that accept externally provided fixed contributions to the calculated structure factors. The PLATON SQUEEZE tool calculates the solvent contribution to the structure factors by back-Fourier transformation of the electron density found in the solvent-accessible region of a phase-optimized difference electron-density map. The actual least-squares structure refinement is delegated to, for example, SHELXL. The current versions of PLATON SQUEEZE and SHELXL now address several of the unnecessary complications with the earlier implementation of the SQUEEZE procedure that were a necessity because least-squares refinement with the now superseded SHELXL97 program did not allow for the input of fixed externally provided contributions to the structure-factor calculation. It is no longer necessary to subtract the solvent contribution temporarily from the observed intensities to be able to use SHELXL for the least-squares refinement, since that program now accepts the solvent contribution from an external file (.fab file) if the ABIN instruction is used. In addition, many twinned structures containing disordered solvents are now also treatable by SQUEEZE. The details of a SQUEEZE calculation are now automatically included in the CIF archive file, along with the unmerged reflection data. The current implementation of the SQUEEZE procedure is described, and discussed and illustrated with three examples. Two of them are based on the reflection data of published structures and one on synthetic reflection data generated for a published structure.

Use of intensity quotients and differences in absolute structure refinement

Abstract: Several methods for absolute structure refinement were tested using single-crystal X-ray diffraction data collected using Cu Kα radiation for 23 crystals with no element heavier than oxygen: conventional refinement using an inversion twin model, estimation using intensity quotients in SHELXL2012, estimation using Bayesian methods in PLATON, estimation using restraints consisting of numerical intensity differences in CRYSTALS and estimation using differences and quotients in TOPAS-Academic where both quantities were coded in terms of other structural parameters and implemented as restraints. The conventional refinement approach yielded accurate values of the Flack parameter, but with standard uncertainties ranging from 0.15 to 0.77. The other methods also yielded accurate values of the Flack parameter, but with much higher precision. Absolute structure was established in all cases, even for a hydrocarbon. The procedures in which restraints are coded explicitly in terms of other structural parameters enable the Flack parameter to correlate with these other parameters, so that it is determined along with those parameters during refinement.

The anatomy of a comprehensive constrained, restrained refinement program for the modern computing environment – Olex2 dissected

Abstract: This paper describes the mathematical basis for olex2.refine, the new refinement engine which is integrated within the Olex2 program. Precise and clear equations are provided for every computation performed by this engine, including structure factors and their derivatives, constraints, restraints and twinning; a general overview is also given of the different components of the engine and their relation to each other. A framework for adding multiple general constraints with dependencies on common physical parameters is described. Several new restraints on atomic displacement parameters are also presented.