Evidence map›Paper›PMID 40301408›Full record

ArticleScientific reports2025

Application of a quantum crystallographic protocol to YLID, the world's most common crystal structure.

Yaser Balmohammadi, Lorraine A Malaspina, Yuiga Nakamura, Georgia Cametti, Michał Andrzejewski, Milosz Siczek, Simon Grabowsky

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Article in Scientific reports, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

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2citing papers in PubMed
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1 · What the graph read from it

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2 · The registry

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3 · Its place in the literature

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2 citing papers in PubMed.

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4 · The record

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5 · Who and what money

Authors and funding

7 authors.

Yaser BalmohammadiDepartment of Chemistry, Biochemistry and Pharmaceutical Sciences, University of Bern, Freiestrasse 3, 3012, Bern, Switzerland.
Lorraine A MalaspinaDepartment of Chemistry, Biochemistry and Pharmaceutical Sciences, University of Bern, Freiestrasse 3, 3012, Bern, Switzerland.
Yuiga NakamuraJapan Synchrotron Radiation Research Institute (JASRI), Sayo-Cho, Hyogo, 679-5198, Japan.
Georgia CamettiInstitute of Geological Sciences, University of Bern, Baltzerstrasse 3, 3012, Bern, Switzerland.
Michał AndrzejewskiPaul Scherrer Institute, Forschungsstrasse 111, 5232, Villigen, Switzerland.
Milosz SiczekFaculty of Chemistry, University of Wrocław, F. Joliot-Curie 14, 50383, Wrocław, Poland.
Simon GrabowskyDepartment of Chemistry, Biochemistry and Pharmaceutical Sciences, University of Bern, Freiestrasse 3, 3012, Bern, Switzerland. simon.grabowsky@unibe.ch.

Funding

Japan Synchrotron Radiation Research Institute 2023A1504Swiss National Science Foundation 206021_177033
6 · The paper itself

Abstract

2-Dimethylsulfuranylidene-l,3-indanedione (YLID) is the most common crystal structure in the world not because of its chemical or physical properties, but because of its use as a test crystal for commercial diffractometers by nearly all vendors for more than 50 years. We will use it as an example here to showcase how the application of modern quantum-crystallographic refinement techniques and new experiments can unravel a so-far hidden story, which puts the emphasis back on the interesting chemical and physical properties of this crystal structure. We present a new chiral form of orthorhombic YLID (the left-handed LS form) and describe the complicated relationship between helical crystal packing and molecular planar chirality. We investigate polymorphs of YLID with twisted and planar molecular configuration as a function of temperature (100 to 292 K) and external pressure (0 to 4 GPa). However, finally only chemical pressure, namely the insertion of water into the crystal structure, can transform the twisted into the planar structure. A combination of quantum crystallography and repeated measurements of the orthorhombic test crystal gives access to an estimate of reproducibility and reliability of refining both anomalous dispersion and Flack parameters. It appears that the chemical environment of covalently bonded atoms has an influence on the anomalous dispersion parameters.

Identifiers

PMID40301408
PMCPMC12041244

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