Dr Dheeraj Prakaash

Research

Large-scale simulations of the bacterial cell envelope at multiple levels of resolution.

Publication list

Khalid S, Brandner AF, Juraschko N, Newman KE, Pedebos C, Prakaash D, Smith IPS, Waller C, Weerakoon D. (2023), "Computational microbiology of bacteria: Advancements in molecular dynamics simulations", Structure, DOI: 10.1016/j.str.2023.09.012
Prakaash D and Khalid S (2023), "All-Atom Mesoscale Simulations Predict the Conformational Dynamics of Influenza Virus Surface Glycoproteins.", ACS Central Science (This is a commentary piece). DOI: 10.1021/acscentsci.3c00020
Webby MN, Oluwole AO, Pedebos C, Inns PG, Olerinyova A, Prakaash D, Housden NG, Benn G, Sun D, Hoogenboom BW, Kukura P, Mohammed S, Robinson CV, Khalid S, Kleanthous C (2022) "Lipids mediate supramolecular outer membrane protein assembly in bacteria", Science Advances, DOI: 10.1126/sciadv.adc9566
Prakaash D, Cook G, Acuto O, Kalli A. (2021) “Multi-scale simulations of the T cell receptor reveal its lipid interactions, dynamics and the arrangement of its cytoplasmic region.” PLoS computational biology, 17, e1009232. https://doi.org/10.1371/journal.pcbi.1009232
Lanz A, Masi G, Porciello N, Cohnen A, Cipria D, Prakaash D, Balint S, Raggiaschi R, Galgano D, Cole D, Lepore M, Dushek O, Dustin M, Sansom M, Kalli A, Acuto O. (2021) “Allosteric activation of T cell antigen receptor signaling by quaternary structure relaxation.” Cell Reports, 36, 109375. https://doi.org/10.1016/j.celrep.2021.109375

Contact details
Department of Biochemistry,
University of Oxford,
South Parks Road
Oxford
OX1 3QU
U.K.