Combining crystallography with quantum mechanics. (February 2022)

• Record Type: Journal Article
• Authors: Bergmann, Justin; Oksanen, Esko; Ryde, Ulf
• Is Part Of: Current opinion in structural biology. Volume 72(2022)
• Page Start: 18
• Page End: 26
• Publication Date: 2022-02
• Subjects: X-ray crystallography -- quantum refinement -- protonation state -- tautomeric state -- ligand strain; Molecular biology -- Periodicals; 570
• DOI: 10.1016/j.sbi.2021.07.002
• Languages: English
• ISSNs: 0959-440X

Abstract

Abstract: In standard crystallographic refinement of biomacromolecules, the crystallographic raw data are supplemented by empirical restraints that ensure that the structure makes chemical sense. These restraints are typically accurate for amino acids and nucleic acids, but less so for cofactors, substrates, inhibitors, ligands and metal sites. In quantum refinement, this potential is replaced by more accurate quantum mechanical (QM) calculations. Several implementations have been presented, differing in the level of QM and whether it is used for the entire structure or only for a site of particular interest. It has been shown that the method can improve and correct errors in crystal structures and that it can be used to determine protonation and tautomeric states of various ligands and to decide what is really seen in the structure by refining different interpretations and using standard crystallographic and QM quality measures to decide which fits the structure best.