Actin filament modeling and MD simulations

Understanding the Differences between Rabbit and Plasmodium Actin Filament Structure: My current postdoctoral research work with Prof. Dr. Rebecca Wade aims to understand the structural and mechanistic differences between Rabbit and Plasmodium actin filaments. I use molecular modeling and molecular dynamics simulation (coarse-grained and atomic-resolution) methods to address the aforementioned problem. The work is in close collaboration with the experimental research group of Prof. Dr. Frischknecht from Universitäts Klinikum Heidelberg, to validate the computational outcomes. This work will help to design effective antimalarial compounds against the invasion of malaria parasite into the human skin (PLoS Biology 2018). This was the first study which reported a computational protocol to identify architectural differences in the parasite and human actin filament models using MD simulations. We identified several residues which are different in parasite actin protein as compared to human actin and are present at the protomer-protomer interface in filament structure. These residues are responsible for the differential actin filaments formation and thereby govern the parasite motility. These residues are proposed to target for parasite-specific actin‑targeted drug design against malaria (Manuscript under preparation). Also, these insights are helpful to design anticancer compounds targeting actin infrastructure in human cancer cells.

Publication:

Ross G. Douglas, Prajwal Nandekar, Julia-Elisabeth Aktories, Hirdesh Kumar, Rebekka Weber, Julia M. Sattler, Mirko Singer, Simone Lepper, S. Kashif Sadiq, Rebecca C. Wade, Friedrich Frischknecht.. Inter-subunit interactions drive divergent dynamics in mammalian and Plasmodium actin filaments, PLOS Biology, July 16, 2018 https://doi.org/10.1371/journal.pbio.2005345

Media content: https://www.h-its.org/scientific-news/malaria_actin_en/