Radka Svobodová Appointed Professor
The head of the Structural Bioinformatics research group, Radka Svobodová, received her professorial appointment decree on 1 June 2026.
Partial atomic charges provide a simplified description of the molecular electrostatic distribution that governs interactions with the surrounding environment. Owing to their widespread use in computational chemistry, chemoinformatics, and bioinformatics, fast and reasonably accurate empirical approaches remain highly relevant.
To address this, the Structural Bioinformatics research group developed Atomic Charge Calculator III (ACC III), a web application for computing partial atomic charges for diverse molecular systems, including small organic molecules and proteins. ACC III builds on previous releases and implements 20 widely used empirical charge calculation methods, including the state-of-the-art SQE+qp approach with updated parameters. The platform integrates the modern Mol* viewer for interactive visualization and supports embedding computed charges directly into mmCIF files using a formally defined extension, enabling distribution of results in a community-standard, FAIR structural format.
ACC III was recently published in the Nucleic Acids Research. Its article is titled Atomic Charge Calculator III: a modern platform for calculating partial atomic charges.
The head of the Structural Bioinformatics research group, Radka Svobodová, received her professorial appointment decree on 1 June 2026.
An article titled "Analysis of the conformations of cyclohexane, cyclopentane, and benzene in ligands for X-ray structures from the PDB database using the Hill-Reilly approach" was published in the Journal of Cheminformatics.