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Probing the accuracy and precision of Hirshfeld atom refinement with HARt interfaced with Olex2
- Source :
- Fugel, M, Jayatilaka, D, Hupf, E, Overgaard, J, Hathwar, V R, Macchi, P, Turner, M J, Howard, J A K, Dolomanov, O V, Puschmann, H, Iversen, B B, Bürgi, H B & Grabowsky, S 2018, ' Probing the accuracy and precision of Hirshfeld atom refinement with HARt interfaced with Olex2 ', IUCrJ, vol. 5, no. 1, pp. 32-44 . https://doi.org/10.1107/S2052252517015548, IUCrJ, 2018, Vol.5(1), pp.32-44 [Peer Reviewed Journal], IUCrJ, Vol 5, Iss 1, Pp 32-44 (2018), Fugel, Malte; Jayatilaka, Dylan; Hupf, Emanuel; Overgaard, Jacob; Hathwar, Venkatesha R.; Macchi, Piero; Turner, Michael J.; Howard, Judith A. K.; Dolomanov, Oleg V.; Puschmann, Horst; Iversen, Bo B.; Bürgi, Hans-Beat; Grabowsky, Simon (2018). Probing the accuracy and precision of Hirshfeld atom refinement with HARt interfaced with Olex2. IUCrJ, 5(1), pp. 32-44. International Union of Crystallography 10.1107/S2052252517015548
- Publication Year :
- 2018
-
Abstract
- Hirshfeld atom refinement (HAR) is a novel X-ray structure refinement technique that employs aspherical atomic scattering factors obtained from stockholder partitioning of a theoretically determined tailor-made static electron density. HAR overcomes many of the known limitations of independent atom modelling (IAM), such as too short element–hydrogen distances, r(X—H), or too large atomic displacement parameters (ADPs). This study probes the accuracy and precision of anisotropic hydrogen and non-hydrogen ADPs and of r(X—H) values obtained from HAR. These quantities are compared and found to agree with those obtained from (i) accurate neutron diffraction data measured at the same temperatures as the X-ray data and (ii) multipole modelling (MM), an established alternative method for interpreting X-ray diffraction data with the help of aspherical atomic scattering factors. Results are presented for three chemically different systems: the aromatic hydrocarbon rubrene (orthorhombic 5,6,11,12-tetraphenyltetracene), a co-crystal of zwitterionic betaine, imidazolium cations and picrate anions (BIPa), and the salt potassium hydrogen oxalate (KHOx). The non-hydrogen HAR-ADPs are as accurate and precise as the MM-ADPs. Both show excellent agreement with the neutron-based values and are superior to IAM-ADPs. The anisotropic hydrogen HAR-ADPs show a somewhat larger deviation from neutron-based values than the hydrogen SHADE-ADPs used in MM. Element–hydrogen bond lengths from HAR are in excellent agreement with those obtained from neutron diffraction experiments, although they are somewhat less precise. The residual density contour maps after HAR show fewer features than those after MM. Calculating the static electron density with the def2-TZVP basis set instead of the simpler def2-SVP one does not improve the refinement results significantly. All HARs were performed within the recently introduced HARt option implemented in the Olex2 program. They are easily launched inside its graphical user interface following a conventional IAM.
- Subjects :
- Diffraction
10120 Department of Chemistry
Electron density
crystallographic software
1303 Biochemistry
3104 Condensed Matter Physics
Neutron diffraction
Analytical chemistry
1600 General Chemistry
010402 general chemistry
010403 inorganic & nuclear chemistry
01 natural sciences
Biochemistry
Molecular physics
Atom
540 Chemistry
General Materials Science
Neutron
lcsh:Science
Basis set
Scattering
Chemistry
General Chemistry
hydrogen-atom properties
Condensed Matter Physics
2500 General Materials Science
0104 chemical sciences
Bond length
Hirshfeld atom refinement
anisotropic displacement parameters
570 Life sciences
biology
lcsh:Q
multipole modelling
Subjects
Details
- Language :
- English
- Database :
- OpenAIRE
- Journal :
- Fugel, M, Jayatilaka, D, Hupf, E, Overgaard, J, Hathwar, V R, Macchi, P, Turner, M J, Howard, J A K, Dolomanov, O V, Puschmann, H, Iversen, B B, Bürgi, H B & Grabowsky, S 2018, ' Probing the accuracy and precision of Hirshfeld atom refinement with HARt interfaced with Olex2 ', IUCrJ, vol. 5, no. 1, pp. 32-44 . https://doi.org/10.1107/S2052252517015548, IUCrJ, 2018, Vol.5(1), pp.32-44 [Peer Reviewed Journal], IUCrJ, Vol 5, Iss 1, Pp 32-44 (2018), Fugel, Malte; Jayatilaka, Dylan; Hupf, Emanuel; Overgaard, Jacob; Hathwar, Venkatesha R.; Macchi, Piero; Turner, Michael J.; Howard, Judith A. K.; Dolomanov, Oleg V.; Puschmann, Horst; Iversen, Bo B.; Bürgi, Hans-Beat; Grabowsky, Simon (2018). Probing the accuracy and precision of Hirshfeld atom refinement with HARt interfaced with Olex2. IUCrJ, 5(1), pp. 32-44. International Union of Crystallography 10.1107/S2052252517015548 <http://dx.doi.org/10.1107/S2052252517015548>
- Accession number :
- edsair.doi.dedup.....b193e1685071d40c171062a1b3a883e1