Computing absolute binding affinities by Streamlined Alchemical Free Energy Perturbation (SAFEP)
E. Santiago-McRae, M. Ebrahimi, J. W. Sandberg, G. Brannigan, J. Henin
The paper introduces SAFEP, a framework for computing free energy of binding using alchemical free energy perturbation in NAMD, with a practical example on phenol to lysozyme.
bioRxiv · Dec 9, 2022 · PreprintBiophysics