[gmx-users] Volume of peripheral protein

[Pallavi Banerjee]

Hello gromacs users,

My system comprises the GFP (protein) anchored to a lipid membrane via a
polysaccharide. I need to calculate the volume of this peripheral protein
throughout the simulation. Calculating the volume from the solvent
accessible surface area is probably not a good idea because the protein
sleeps on the membrane for a significant part of the trajectory. Could you
suggest other ways?

Thanks in advance.

Best,

Pallavi Banerjee




‌