Calculate hsAFM images given a molecular system. This has been built to image SARS-CoV-2 spike protein positioned on mica surface, therefore many options pertain to that. Nevertheless, this can be easily adopted to any protein of interest or trajectory thereof.
Example run is included at the bottom of the script. Should produce something like that:
If you use the Emulator, please cite:
Zhu, R., Canena, D., Sikora, M. et al. Force-tuned avidity of spike variant-ACE2 interactions viewed on the single-molecule level.
Nat Commun 13, 7926 (2022). https://doi.org/10.1038/s41467-022-35641-3