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Updated: Sep 2, 2025

Author Spotlight: A Computational Approach to Decipher Amino Acid Preferences in Multispecific Protein-Protein Interactions
Published on: January 26, 2024
Does the inclusion of electronic polarisability lead to a better modelling of peptide aggregation?
Batuhan Kav1, Birgit Strodel1,2
1Institute of Biological Information Processing: Structural Biochemistry (IBI-7), Forschungszentrum Jülich 52428 Jülich Germany b.strodel@fz-juelich.de.
Abstract:
Simulating the process of amyloid aggregation with atomic detail is a challenging task for various reasons. One of them is that it is difficult to parametrise a force field such that all protein states ranging from the folded through the unfolded to the aggregated state are represented with the same level of accuracy. Here, we test whether the consideration of electronic polarisability improves the description of the different states of Aβ16-22. Surprisingly, the CHARMM Drude polarisable force field is found to perform worse than its unpolarisable counterpart CHARMM36m. Sources for this failure of the Drude model are discussed.
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